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Sample records for relational database set

  1. Set-oriented data mining in relational databases

    NARCIS (Netherlands)

    Houtsma, M.A.W.; Swami, Arun

    1995-01-01

    Data mining is an important real-life application for businesses. It is critical to find efficient ways of mining large data sets. In order to benefit from the experience with relational databases, a set-oriented approach to mining data is needed. In such an approach, the data mining operations are

  2. Set-Oriented Mining for Association Rules in Relational Databases

    NARCIS (Netherlands)

    Houtsma, M.A.W.; Houtsma, M.A.W.; Swami, A.

    1995-01-01

    Describe set-oriented algorithms for mining association rules. Such algorithms imply performing multiple joins and may appear to be inherently less efficient than special-purpose algorithms. We develop new algorithms that can be expressed as SQL queries, and discuss the optimization of these

  3. Relational databases

    CERN Document Server

    Bell, D A

    1986-01-01

    Relational Databases explores the major advances in relational databases and provides a balanced analysis of the state of the art in relational databases. Topics covered include capture and analysis of data placement requirements; distributed relational database systems; data dependency manipulation in database schemata; and relational database support for computer graphics and computer aided design. This book is divided into three sections and begins with an overview of the theory and practice of distributed systems, using the example of INGRES from Relational Technology as illustration. The

  4. Application of Optical Disc Databases and Related Technology to Public Access Settings

    Science.gov (United States)

    1992-03-01

    librarians during one on one instruction, and the ability of users to browse the database. Correlation of the James A. Haley Veterans Hospital study findings...library to another, librarians must collect and study data about information gathering characteristics of their own users . (Harter and Jackson 1988...based training: improving the quality of end- user searching. The Journal of Academic Librarianship 17, no. 3: 152-56. Ciuffetti, Peter D. 1991a. A plea

  5. Data management and language enhancement for generalized set theory computer language for operation of large relational databases

    Science.gov (United States)

    Finley, Gail T.

    1988-01-01

    This report covers the study of the relational database implementation in the NASCAD computer program system. The existing system is used primarily for computer aided design. Attention is also directed to a hidden-surface algorithm for final drawing output.

  6. MARC and Relational Databases.

    Science.gov (United States)

    Llorens, Jose; Trenor, Asuncion

    1993-01-01

    Discusses the use of MARC format in relational databases and addresses problems of incompatibilities. A solution is presented that is in accordance with Open Systems Interconnection (OSI) standards and is based on experiences at the library of the Universidad Politecnica de Valencia (Spain). (four references) (EA)

  7. Relational Database Technology: An Overview.

    Science.gov (United States)

    Melander, Nicole

    1987-01-01

    Describes the development of relational database technology as it applies to educational settings. Discusses some of the new tools and models being implemented in an effort to provide educators with technologically advanced ways of answering questions about education programs and data. (TW)

  8. Multilevel security for relational databases

    CERN Document Server

    Faragallah, Osama S; El-Samie, Fathi E Abd

    2014-01-01

    Concepts of Database Security Database Concepts Relational Database Security Concepts Access Control in Relational Databases      Discretionary Access Control      Mandatory Access Control      Role-Based Access Control Work Objectives Book Organization Basic Concept of Multilevel Database Security IntroductionMultilevel Database Relations Polyinstantiation      Invisible Polyinstantiation      Visible Polyinstantiation      Types of Polyinstantiation      Architectural Consideration

  9. Index Selection in Relational Databases

    NARCIS (Netherlands)

    Choenni, R.S.; Blanken, Henk; Chang, S.C.

    Intending to develop a tool which aims to support the physical design of relational databases can not be done without considering the problem of index selection. Generally the problem is split into a primary and secondary index selection problem and the selection is done per table. Whereas much

  10. Modeling biology using relational databases.

    Science.gov (United States)

    Peitzsch, Robert M

    2003-02-01

    There are several different methodologies that can be used for designing a database schema; no one is the best for all occasions. This unit demonstrates two different techniques for designing relational tables and discusses when each should be used. These two techniques presented are (1) traditional Entity-Relationship (E-R) modeling and (2) a hybrid method that combines aspects of data warehousing and E-R modeling. The method of choice depends on (1) how well the information and all its inherent relationships are understood, (2) what types of questions will be asked, (3) how many different types of data will be included, and (4) how much data exists.

  11. A Relational Database System for Student Use.

    Science.gov (United States)

    Fertuck, Len

    1982-01-01

    Describes an APL implementation of a relational database system suitable for use in a teaching environment in which database development and database administration are studied, and discusses the functions of the user and the database administrator. An appendix illustrating system operation and an eight-item reference list are attached. (Author/JL)

  12. Automating Relational Database Design for Microcomputer Users.

    Science.gov (United States)

    Pu, Hao-Che

    1991-01-01

    Discusses issues involved in automating the relational database design process for microcomputer users and presents a prototype of a microcomputer-based system (RA, Relation Assistant) that is based on expert systems technology and helps avoid database maintenance problems. Relational database design is explained and the importance of easy input…

  13. Relative aggregation operator in database fuzzy querying

    Directory of Open Access Journals (Sweden)

    Luminita DUMITRIU

    2005-12-01

    Full Text Available Fuzzy selection criteria querying relational databases include vague terms; they usually refer linguistic values form the attribute linguistic domains, defined as fuzzy sets. Generally, when a vague query is processed, the definitions of vague terms must already exist in a knowledge base. But there are also cases when vague terms must be dynamically defined, when a particular operation is used to aggregate simple criteria in a complex selection. The paper presents a new aggregation operator and the corresponding algorithm to evaluate the fuzzy query.

  14. Relational Databases and Biomedical Big Data.

    Science.gov (United States)

    de Silva, N H Nisansa D

    2017-01-01

    In various biomedical applications that collect, handle, and manipulate data, the amounts of data tend to build up and venture into the range identified as bigdata. In such occurrences, a design decision has to be taken as to what type of database would be used to handle this data. More often than not, the default and classical solution to this in the biomedical domain according to past research is relational databases. While this used to be the norm for a long while, it is evident that there is a trend to move away from relational databases in favor of other types and paradigms of databases. However, it still has paramount importance to understand the interrelation that exists between biomedical big data and relational databases. This chapter will review the pros and cons of using relational databases to store biomedical big data that previous researches have discussed and used.

  15. Jelly Views : Extending Relational Database Systems Toward Deductive Database Systems

    Directory of Open Access Journals (Sweden)

    Igor Wojnicki

    2004-01-01

    Full Text Available This paper regards the Jelly View technology, which provides a new, practical methodology for knowledge decomposition, storage, and retrieval within Relational Database Management Systems (RDBMS. Intensional Knowledge clauses (rules are decomposed and stored in the RDBMS founding reusable components. The results of the rule-based processing are visible as regular views, accessible through SQL. From the end-user point of view the processing capability becomes unlimited (arbitrarily complex queries can be constructed using Intensional Knowledge, while the most external queries are expressed with standard SQL. The RDBMS functionality becomes extended toward that of the Deductive Databases

  16. Relational Database Design in Information Science Education.

    Science.gov (United States)

    Brooks, Terrence A.

    1985-01-01

    Reports on database management system (dbms) applications designed by library school students for university community at University of Iowa. Three dbms design issues are examined: synthesis of relations, analysis of relations (normalization procedure), and data dictionary usage. Database planning prior to automation using data dictionary approach…

  17. Web interfaces to relational databases

    Science.gov (United States)

    Carlisle, W. H.

    1996-01-01

    This reports on a project to extend the capabilities of a Virtual Research Center (VRC) for NASA's Advanced Concepts Office. The work was performed as part of NASA's 1995 Summer Faculty Fellowship program and involved the development of a prototype component of the VRC - a database system that provides data creation and access services within a room of the VRC. In support of VRC development, NASA has assembled a laboratory containing the variety of equipment expected to be used by scientists within the VRC. This laboratory consists of the major hardware platforms, SUN, Intel, and Motorola processors and their most common operating systems UNIX, Windows NT, Windows for Workgroups, and Macintosh. The SPARC 20 runs SUN Solaris 2.4, an Intel Pentium runs Windows NT and is installed on a different network from the other machines in the laboratory, a Pentium PC runs Windows for Workgroups, two Intel 386 machines run Windows 3.1, and finally, a PowerMacintosh and a Macintosh IIsi run MacOS.

  18. BIOSPIDA: A Relational Database Translator for NCBI.

    Science.gov (United States)

    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.

  19. Repetitive Bibliographical Information in Relational Databases.

    Science.gov (United States)

    Brooks, Terrence A.

    1988-01-01

    Proposes a solution to the problem of loading repetitive bibliographic information in a microcomputer-based relational database management system. The alternative design described is based on a representational redundancy design and normalization theory. (12 references) (Author/CLB)

  20. HIERARCHICAL ORGANIZATION OF INFORMATION, IN RELATIONAL DATABASES

    Directory of Open Access Journals (Sweden)

    Demian Horia

    2008-05-01

    Full Text Available In this paper I will present different types of representation, of hierarchical information inside a relational database. I also will compare them to find the best organization for specific scenarios.

  1. Modification Semantics in Now-Relative Databases

    DEFF Research Database (Denmark)

    Torp, Kristian; Jensen, Christian Søndergaard; Snodgrass, R. T.

    2004-01-01

    Most real-world databases record time-varying information. In such databases, the notion of ??the current time,?? or NOW, occurs naturally and prominently. For example, when capturing the past states of a relation using begin and end time columns, tuples that are part of the current state have some...... past time as their begin time and NOW as their end time. While the semantics of such variable databases has been described in detail and is well understood, the modification of variable databases remains unexplored. This paper defines the semantics of modifications involving the variable NOW. More...... specifically,  the problems with modifications in the presence of NOW are explored, illustrating that the main problems are with modifications of tuples that reach into the future. The paper defines the semantics of modifications?including insertions, deletions, and updates?of databases without NOW, with NOW...

  2. Switching the Fermilab Accelerator Control System to a relational database

    International Nuclear Information System (INIS)

    Shtirbu, S.

    1993-01-01

    The accelerator control system (open-quotes ACNETclose quotes) at Fermilab is using a made-in-house, Assembly language, database. The database holds device information, which is mostly used for finding out how to read/set devices and how to interpret alarms. This is a very efficient implementation, but it lacks the needed flexibility and forces applications to store data in private/shared files. This database is being replaced by an off-the-shelf relational database (Sybase 2 ). The major constraints on switching are the necessity to maintain/improve response time and to minimize changes to existing applications. Innovative methods are used to help achieve the required performance, and a layer seven gateway simulates the old database for existing programs. The new database is running on a DEC ALPHA/VMS platform, and provides better performance. The switch is also exposing problems with the data currently stored in the database, and is helping in cleaning up erroneous data. The flexibility of the new relational database is going to facilitate many new applications in the future (e.g. a 3D presentation of device location). The new database is expected to fully replace the old database during this summer's shutdown

  3. A Relational Algebra Query Language for Programming Relational Databases

    Science.gov (United States)

    McMaster, Kirby; Sambasivam, Samuel; Anderson, Nicole

    2011-01-01

    In this paper, we describe a Relational Algebra Query Language (RAQL) and Relational Algebra Query (RAQ) software product we have developed that allows database instructors to teach relational algebra through programming. Instead of defining query operations using mathematical notation (the approach commonly taken in database textbooks), students…

  4. The Steward Observatory asteroid relational database

    Science.gov (United States)

    Sykes, Mark V.; Alvarezdelcastillo, Elizabeth M.

    1991-01-01

    The Steward Observatory Asteroid Relational Database (SOARD) was created as a flexible tool for undertaking studies of asteroid populations and sub-populations, to probe the biases intrinsic to asteroid databases, to ascertain the completeness of data pertaining to specific problems, to aid in the development of observational programs, and to develop pedagogical materials. To date, SOARD has compiled an extensive list of data available on asteroids and made it accessible through a single menu-driven database program. Users may obtain tailored lists of asteroid properties for any subset of asteroids or output files which are suitable for plotting spectral data on individual asteroids. The program has online help as well as user and programmer documentation manuals. The SOARD already has provided data to fulfill requests by members of the astronomical community. The SOARD continues to grow as data is added to the database and new features are added to the program.

  5. Predicting Customers Churn in a Relational Database

    Directory of Open Access Journals (Sweden)

    Catalin CIMPOERU

    2014-01-01

    Full Text Available This paper explores how two main classical classification models work and generate predictions through a commercial solution of relational database management system (Microsoft SQL Server 2012. The aim of the paper is to accurately predict churn among a set of customers defined by various discrete and continuous variables, derived from three main data sources: the commercial transactions history; the users’ behavior or events happening on their computers; the specific identity information provided by the customers themselves. On a theoretical side, the paper presents the main concepts and ideas underlying the Decision Tree and Naïve Bayes classifiers and exemplifies some of them with actual hand-made calculations of the data being modeled by the software. On an analytical and practical side, the paper analyzes the graphs and tables generated by the classifying models and also reveal the main data insights. In the end, the classifiers’ accuracy is evaluated based on the test data method. The most accurate one is chosen for generating predictions on the customers’ data where the values of the response variable are not known.

  6. Relational databases for SSC design and control

    International Nuclear Information System (INIS)

    Barr, E.; Peggs, S.; Saltmarsh, C.

    1989-01-01

    Most people agree that a database is A Good Thing, but there is much confusion in the jargon used, and in what jobs a database management system and its peripheral software can and cannot do. During the life cycle of an enormous project like the SSC, from conceptual and theoretical design, through research and development, to construction, commissioning and operation, an enormous amount of data will be generated. Some of these data, originating in the early parts of the project, will be needed during commissioning or operation, many years in the future. Two of these pressing data management needs-from the magnet research and industrialization programs and the lattice design-have prompted work on understanding and adapting commercial database practices for scientific projects. Modern relational database management systems (rDBMS's) cope naturally with a large proportion of the requirements of data structures, like the SSC database structure built for the superconduction cable supplies, uses, and properties. This application is similar to the commercial applications for which these database systems were developed. The SSC application has further requirements not immediately satisfied by the commercial systems. These derive from the diversity of the data structures to be managed, the changing emphases and uses during the project lifetime, and the large amount of scientific data processing to be expected. 4 refs., 5 figs

  7. Generic Entity Resolution in Relational Databases

    Science.gov (United States)

    Sidló, Csaba István

    Entity Resolution (ER) covers the problem of identifying distinct representations of real-world entities in heterogeneous databases. We consider the generic formulation of ER problems (GER) with exact outcome. In practice, input data usually resides in relational databases and can grow to huge volumes. Yet, typical solutions described in the literature employ standalone memory resident algorithms. In this paper we utilize facilities of standard, unmodified relational database management systems (RDBMS) to enhance the efficiency of GER algorithms. We study and revise the problem formulation, and propose practical and efficient algorithms optimized for RDBMS external memory processing. We outline a real-world scenario and demonstrate the advantage of algorithms by performing experiments on insurance customer data.

  8. Data Migration between Document-Oriented and Relational Databases

    OpenAIRE

    Bogdan Walek; Cyril Klimes

    2012-01-01

    Current tools for data migration between documentoriented and relational databases have several disadvantages. We propose a new approach for data migration between documentoriented and relational databases. During data migration the relational schema of the target (relational database) is automatically created from collection of XML documents. Proposed approach is verified on data migration between document-oriented database IBM Lotus/ Notes Domino and relational database...

  9. Persistent Functional Languages: Toward Functional Relational Databases

    NARCIS (Netherlands)

    Wevers, L.

    2014-01-01

    Functional languages provide new approaches to concurrency control, based on techniques such as lazy evaluation and memoization. We have designed and implemented a persistent functional language based on these ideas, which we plan to use for the implementation of a relational database system. With

  10. Schema Versioning for Multitemporal Relational Databases.

    Science.gov (United States)

    De Castro, Cristina; Grandi, Fabio; Scalas, Maria Rita

    1997-01-01

    Investigates new design options for extended schema versioning support for multitemporal relational databases. Discusses the improved functionalities they may provide. Outlines options and basic motivations for the new design solutions, as well as techniques for the management of proposed schema versioning solutions, includes algorithms and…

  11. The utility of imputed matched sets. Analyzing probabilistically linked databases in a low information setting.

    Science.gov (United States)

    Thomas, A M; Cook, L J; Dean, J M; Olson, L M

    2014-01-01

    To compare results from high probability matched sets versus imputed matched sets across differing levels of linkage information. A series of linkages with varying amounts of available information were performed on two simulated datasets derived from multiyear motor vehicle crash (MVC) and hospital databases, where true matches were known. Distributions of high probability and imputed matched sets were compared against the true match population for occupant age, MVC county, and MVC hour. Regression models were fit to simulated log hospital charges and hospitalization status. High probability and imputed matched sets were not significantly different from occupant age, MVC county, and MVC hour in high information settings (p > 0.999). In low information settings, high probability matched sets were significantly different from occupant age and MVC county (p sets were not (p > 0.493). High information settings saw no significant differences in inference of simulated log hospital charges and hospitalization status between the two methods. High probability and imputed matched sets were significantly different from the outcomes in low information settings; however, imputed matched sets were more robust. The level of information available to a linkage is an important consideration. High probability matched sets are suitable for high to moderate information settings and for situations involving case-specific analysis. Conversely, imputed matched sets are preferable for low information settings when conducting population-based analyses.

  12. Constructing a Geology Ontology Using a Relational Database

    Science.gov (United States)

    Hou, W.; Yang, L.; Yin, S.; Ye, J.; Clarke, K.

    2013-12-01

    In geology community, the creation of a common geology ontology has become a useful means to solve problems of data integration, knowledge transformation and the interoperation of multi-source, heterogeneous and multiple scale geological data. Currently, human-computer interaction methods and relational database-based methods are the primary ontology construction methods. Some human-computer interaction methods such as the Geo-rule based method, the ontology life cycle method and the module design method have been proposed for applied geological ontologies. Essentially, the relational database-based method is a reverse engineering of abstracted semantic information from an existing database. The key is to construct rules for the transformation of database entities into the ontology. Relative to the human-computer interaction method, relational database-based methods can use existing resources and the stated semantic relationships among geological entities. However, two problems challenge the development and application. One is the transformation of multiple inheritances and nested relationships and their representation in an ontology. The other is that most of these methods do not measure the semantic retention of the transformation process. In this study, we focused on constructing a rule set to convert the semantics in a geological database into a geological ontology. According to the relational schema of a geological database, a conversion approach is presented to convert a geological spatial database to an OWL-based geological ontology, which is based on identifying semantics such as entities, relationships, inheritance relationships, nested relationships and cluster relationships. The semantic integrity of the transformation was verified using an inverse mapping process. In a geological ontology, an inheritance and union operations between superclass and subclass were used to present the nested relationship in a geochronology and the multiple inheritances

  13. Solving Relational Database Problems with ORDBMS in an Advanced Database Course

    Science.gov (United States)

    Wang, Ming

    2011-01-01

    This paper introduces how to use the object-relational database management system (ORDBMS) to solve relational database (RDB) problems in an advanced database course. The purpose of the paper is to provide a guideline for database instructors who desire to incorporate the ORDB technology in their traditional database courses. The paper presents…

  14. Database and Related Activities in Japan

    International Nuclear Information System (INIS)

    Murakami, Izumi; Kato, Daiji; Kato, Masatoshi; Sakaue, Hiroyuki A.; Kato, Takako; Ding, Xiaobin; Morita, Shigeru; Kitajima, Masashi; Koike, Fumihiro; Nakamura, Nobuyuki; Sakamoto, Naoki; Sasaki, Akira; Skobelev, Igor; Tsuchida, Hidetsugu; Ulantsev, Artemiy; Watanabe, Tetsuya; Yamamoto, Norimasa

    2011-01-01

    We have constructed and made available atomic and molecular (AM) numerical databases on collision processes such as electron-impact excitation and ionization, recombination and charge transfer of atoms and molecules relevant for plasma physics, fusion research, astrophysics, applied-science plasma, and other related areas. The retrievable data is freely accessible via the internet. We also work on atomic data evaluation and constructing collisional-radiative models for spectroscopic plasma diagnostics. Recently we have worked on Fe ions and W ions theoretically and experimentally. The atomic data and collisional-radiative models for these ions are examined and applied to laboratory plasmas. A visible M1 transition of W 26+ ion is identified at 389.41 nm by EBIT experiments and theoretical calculations. We have small non-retrievable databases in addition to our main database. Recently we evaluated photo-absorption cross sections for 9 atoms and 23 molecules and we present them as a new database. We established a new association ''Forum of Atomic and Molecular Data and Their Applications'' to exchange information among AM data producers, data providers and data users in Japan and we hope this will help to encourage AM data activities in Japan.

  15. Exploiting relational database technology in a GIS

    Science.gov (United States)

    Batty, Peter

    1992-05-01

    All systems for managing data face common problems such as backup, recovery, auditing, security, data integrity, and concurrent update. Other challenges include the ability to share data easily between applications and to distribute data across several computers, whereas continuing to manage the problems already mentioned. Geographic information systems are no exception, and need to tackle all these issues. Standard relational database-management systems (RDBMSs) provide many features to help solve the issues mentioned so far. This paper describes how the IBM geoManager product approaches these issues by storing all its geographic data in a standard RDBMS in order to take advantage of such features. Areas in which standard RDBMS functions need to be extended are highlighted, and the way in which geoManager does this is explained. The performance implications of storing all data in the relational database are discussed. An important distinction is made between the storage and management of geographic data and the manipulation and analysis of geographic data, which needs to be made when considering the applicability of relational database technology to GIS.

  16. Heuristic program to design Relational Databases

    Directory of Open Access Journals (Sweden)

    Manuel Pereira Rosa

    2009-09-01

    Full Text Available The great development of today’s world determines that the world level of information increases day after day, however, the time allowed to transmit this information in the classrooms has not changed. Thus, the rational work in this respect is more than necessary. Besides, if for the solution of a given type of problem we do not have a working algorism, we have, first to look for a correct solution, then the heuristic programs are of paramount importance to succeed in these aspects. Having into consideration that the design of the database is, essentially, a process of problem resolution, this article aims at proposing a heuristic program for the design of the relating database.

  17. Uncertainty Modeling for Database Design using Intuitionistic and Rough Set Theory

    Science.gov (United States)

    2009-01-01

    Definition. An intuitionistic rough relation R is a sub- set of the set cross product P(D1)× P(D2) × · · ·× P( Dm )× Dµ.× Dv. For a specific relation, R...that aj ∈ dij for all j. The interpretation space is the cross product D1× D2 × · · ·× Dm × Dµ× Dv but is limited for a given re- lation R to the set...systems, Journal of Information Science 11 (1985), 77–87. [7] T. Beaubouef and F. Petry, Rough Querying of Crisp Data in Relational Databases, Third

  18. Databases

    Digital Repository Service at National Institute of Oceanography (India)

    Kunte, P.D.

    Information on bibliographic as well as numeric/textual databases relevant to coastal geomorphology has been included in a tabular form. Databases cover a broad spectrum of related subjects like coastal environment and population aspects, coastline...

  19. Renal Gene Expression Database (RGED): a relational database of gene expression profiles in kidney disease

    Science.gov (United States)

    Zhang, Qingzhou; Yang, Bo; Chen, Xujiao; Xu, Jing; Mei, Changlin; Mao, Zhiguo

    2014-01-01

    We present a bioinformatics database named Renal Gene Expression Database (RGED), which contains comprehensive gene expression data sets from renal disease research. The web-based interface of RGED allows users to query the gene expression profiles in various kidney-related samples, including renal cell lines, human kidney tissues and murine model kidneys. Researchers can explore certain gene profiles, the relationships between genes of interests and identify biomarkers or even drug targets in kidney diseases. The aim of this work is to provide a user-friendly utility for the renal disease research community to query expression profiles of genes of their own interest without the requirement of advanced computational skills. Availability and implementation: Website is implemented in PHP, R, MySQL and Nginx and freely available from http://rged.wall-eva.net. Database URL: http://rged.wall-eva.net PMID:25252782

  20. Evaluation of relational database products for the VAX

    International Nuclear Information System (INIS)

    Kannan, K.L.

    1985-11-01

    Four commercially available database products for the VAX/VMS operating system were evaluated for relative performance and ease of use. The products were DATATRIEVE, INGRES, Rdb, and S1032. Performance was measured in terms of elapsed time, CPU time, direct I/O counts, buffered I/O counts, and page faults. East of use is more subjective and has not been quantified here; however, discussion and tables of features as well as query syntax are included. This report describes the environment in which these products were evaluated and the characteristics of the databases used. All comparisons must be interpreted in the context of this setting

  1. Evaluation of relational database products for the VAX

    Energy Technology Data Exchange (ETDEWEB)

    Kannan, K.L.

    1985-11-01

    Four commercially available database products for the VAX/VMS operating system were evaluated for relative performance and ease of use. The products were DATATRIEVE, INGRES, Rdb, and S1032. Performance was measured in terms of elapsed time, CPU time, direct I/O counts, buffered I/O counts, and page faults. East of use is more subjective and has not been quantified here; however, discussion and tables of features as well as query syntax are included. This report describes the environment in which these products were evaluated and the characteristics of the databases used. All comparisons must be interpreted in the context of this setting.

  2. Relational databases for rare disease study: application to vascular anomalies.

    Science.gov (United States)

    Perkins, Jonathan A; Coltrera, Marc D

    2008-01-01

    To design a relational database integrating clinical and basic science data needed for multidisciplinary treatment and research in the field of vascular anomalies. Based on data points agreed on by the American Society of Pediatric Otolaryngology (ASPO) Vascular Anomalies Task Force. The database design enables sharing of data subsets in a Health Insurance Portability and Accountability Act (HIPAA)-compliant manner for multisite collaborative trials. Vascular anomalies pose diagnostic and therapeutic challenges. Our understanding of these lesions and treatment improvement is limited by nonstandard terminology, severity assessment, and measures of treatment efficacy. The rarity of these lesions places a premium on coordinated studies among multiple participant sites. The relational database design is conceptually centered on subjects having 1 or more lesions. Each anomaly can be tracked individually along with their treatment outcomes. This design allows for differentiation between treatment responses and untreated lesions' natural course. The relational database design eliminates data entry redundancy and results in extremely flexible search and data export functionality. Vascular anomaly programs in the United States. A relational database correlating clinical findings and photographic, radiologic, histologic, and treatment data for vascular anomalies was created for stand-alone and multiuser networked systems. Proof of concept for independent site data gathering and HIPAA-compliant sharing of data subsets was demonstrated. The collaborative effort by the ASPO Vascular Anomalies Task Force to create the database helped define a common vascular anomaly data set. The resulting relational database software is a powerful tool to further the study of vascular anomalies and the development of evidence-based treatment innovation.

  3. The standardization of data relational mode in the materials database for nuclear power engineering

    International Nuclear Information System (INIS)

    Wang Xinxuan

    1996-01-01

    A relational database needs standard data relation ships. The data relation ships include hierarchical structures and repeat set records. Code database is created and the relational database is created between spare parts and materials and properties of the materials. The data relation ships which are not standard are eliminated and all the relation modes are made to meet the demands of the 3NF (Third Norm Form)

  4. Learning Ontology from Object-Relational Database

    Directory of Open Access Journals (Sweden)

    Kaulins Andrejs

    2015-12-01

    Full Text Available This article describes a method of transformation of object-relational model into ontology. The offered method uses learning rules for such complex data types as object tables and collections – arrays of a variable size, as well as nested tables. Object types and their transformation into ontologies are insufficiently considered in scientific literature. This fact served as motivation for the authors to investigate this issue and to write the article on this matter. In the beginning, we acquaint the reader with complex data types and object-oriented databases. Then we describe an algorithm of transformation of complex data types into ontologies. At the end of the article, some examples of ontologies described in the OWL language are given.

  5. Relational Databases: A Transparent Framework for Encouraging Biology Students to Think Informatically

    Science.gov (United States)

    Rice, Michael; Gladstone, William; Weir, Michael

    2004-01-01

    We discuss how relational databases constitute an ideal framework for representing and analyzing large-scale genomic data sets in biology. As a case study, we describe a Drosophila splice-site database that we recently developed at Wesleyan University for use in research and teaching. The database stores data about splice sites computed by a…

  6. Renal Gene Expression Database (RGED): a relational database of gene expression profiles in kidney disease.

    Science.gov (United States)

    Zhang, Qingzhou; Yang, Bo; Chen, Xujiao; Xu, Jing; Mei, Changlin; Mao, Zhiguo

    2014-01-01

    We present a bioinformatics database named Renal Gene Expression Database (RGED), which contains comprehensive gene expression data sets from renal disease research. The web-based interface of RGED allows users to query the gene expression profiles in various kidney-related samples, including renal cell lines, human kidney tissues and murine model kidneys. Researchers can explore certain gene profiles, the relationships between genes of interests and identify biomarkers or even drug targets in kidney diseases. The aim of this work is to provide a user-friendly utility for the renal disease research community to query expression profiles of genes of their own interest without the requirement of advanced computational skills. Website is implemented in PHP, R, MySQL and Nginx and freely available from http://rged.wall-eva.net. http://rged.wall-eva.net. © The Author(s) 2014. Published by Oxford University Press.

  7. An Introduction to the DB Relational Database Management System

    OpenAIRE

    Ward, J.R.

    1982-01-01

    This paper is an introductory guide to using the Db programs to maintain and query a relational database on the UNIX operating system. In the past decade. increasing interest has been shown in the development of relational database management systems. Db is an attempt to incorporate a flexible and powerful relational database system within the user environment presented by the UNIX operating system. The family of Db programs is useful for maintaining a database of information that i...

  8. Resource Survey Relational Database Management System

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Mississippi Laboratories employ both enterprise and localized data collection systems for recording data. The databases utilized by these applications range from...

  9. Enhanced DIII-D Data Management Through a Relational Database

    Science.gov (United States)

    Burruss, J. R.; Peng, Q.; Schachter, J.; Schissel, D. P.; Terpstra, T. B.

    2000-10-01

    A relational database is being used to serve data about DIII-D experiments. The database is optimized for queries across multiple shots, allowing for rapid data mining by SQL-literate researchers. The relational database relates different experiments and datasets, thus providing a big picture of DIII-D operations. Users are encouraged to add their own tables to the database. Summary physics quantities about DIII-D discharges are collected and stored in the database automatically. Meta-data about code runs, MDSplus usage, and visualization tool usage are collected, stored in the database, and later analyzed to improve computing. Documentation on the database may be accessed through programming languages such as C, Java, and IDL, or through ODBC compliant applications such as Excel and Access. A database-driven web page also provides a convenient means for viewing database quantities through the World Wide Web. Demonstrations will be given at the poster.

  10. HOLLYWOOD: a comparative relational database of alternative splicing.

    Science.gov (United States)

    Holste, Dirk; Huo, George; Tung, Vivian; Burge, Christopher B

    2006-01-01

    RNA splicing is an essential step in gene expression, and is often variable, giving rise to multiple alternatively spliced mRNA and protein isoforms from a single gene locus. The design of effective databases to support experimental and computational investigations of alternative splicing (AS) is a significant challenge. In an effort to integrate accurate exon and splice site annotation with current knowledge about splicing regulatory elements and predicted AS events, and to link information about the splicing of orthologous genes in different species, we have developed the Hollywood system. This database was built upon genomic annotation of splicing patterns of known genes derived from spliced alignment of complementary DNAs (cDNAs) and expressed sequence tags, and links features such as splice site sequence and strength, exonic splicing enhancers and silencers, conserved and non-conserved patterns of splicing, and cDNA library information for inferred alternative exons. Hollywood was implemented as a relational database and currently contains comprehensive information for human and mouse. It is accompanied by a web query tool that allows searches for sets of exons with specific splicing characteristics or splicing regulatory element composition, or gives a graphical or sequence-level summary of splicing patterns for a specific gene. A streamlined graphical representation of gene splicing patterns is provided, and these patterns can alternatively be layered onto existing information in the UCSC Genome Browser. The database is accessible at http://hollywood.mit.edu.

  11. Development of Information Technology of Object-relational Databases Design

    Directory of Open Access Journals (Sweden)

    Valentyn A. Filatov

    2012-12-01

    Full Text Available The article is concerned with the development of information technology of object-relational databases design and study of object features infological and logical database schemes entities and connections.

  12. “NaKnowBase”: A Nanomaterials Relational Database

    Science.gov (United States)

    NaKnowBase is a relational database populated with data from peer-reviewed ORD nanomaterials research publications. The database focuses on papers describing the actions of nanomaterials in environmental or biological media including their interactions, transformations and poten...

  13. “NaKnowBase”: A Nanomaterials Relational Database

    Science.gov (United States)

    NaKnowBase is an internal relational database populated with data from peer-reviewed ORD nanomaterials research publications. The database focuses on papers describing the actions of nanomaterials in environmental or biological media including their interactions, transformations...

  14. Similarity joins in relational database systems

    CERN Document Server

    Augsten, Nikolaus

    2013-01-01

    State-of-the-art database systems manage and process a variety of complex objects, including strings and trees. For such objects equality comparisons are often not meaningful and must be replaced by similarity comparisons. This book describes the concepts and techniques to incorporate similarity into database systems. We start out by discussing the properties of strings and trees, and identify the edit distance as the de facto standard for comparing complex objects. Since the edit distance is computationally expensive, token-based distances have been introduced to speed up edit distance comput

  15. Integrating pattern mining in relational databases

    NARCIS (Netherlands)

    Calders, T.; Goethals, B.; Prado, A.; Fürnkranz, J.; Scheffer, T.; Spiliopoulou, M.

    2006-01-01

    Almost a decade ago, Imielinski and Mannila introduced the notion of Inductive Databases to manage KDD applications just as DBMSs successfully manage business applications. The goal is to follow one of the key DBMS paradigms: building optimizing compilers for ad hoc queries. During the past decade,

  16. Why Save Your Course as a Relational Database?

    Science.gov (United States)

    Hamilton, Gregory C.; Katz, David L.; Davis, James E.

    2000-01-01

    Describes a system that stores course materials for computer-based training programs in a relational database called Of Course! Outlines the basic structure of the databases; explains distinctions between Of Course! and other authoring languages; and describes how data is retrieved from the database and presented to the student. (Author/LRW)

  17. The Network Configuration of an Object Relational Database Management System

    Science.gov (United States)

    Diaz, Philip; Harris, W. C.

    2000-01-01

    The networking and implementation of the Oracle Database Management System (ODBMS) requires developers to have knowledge of the UNIX operating system as well as all the features of the Oracle Server. The server is an object relational database management system (DBMS). By using distributed processing, processes are split up between the database server and client application programs. The DBMS handles all the responsibilities of the server. The workstations running the database application concentrate on the interpretation and display of data.

  18. Migration from relational to NoSQL database

    Science.gov (United States)

    Ghotiya, Sunita; Mandal, Juhi; Kandasamy, Saravanakumar

    2017-11-01

    Data generated by various real time applications, social networking sites and sensor devices is of very huge amount and unstructured, which makes it difficult for Relational database management systems to handle the data. Data is very precious component of any application and needs to be analysed after arranging it in some structure. Relational databases are only able to deal with structured data, so there is need of NoSQL Database management System which can deal with semi -structured data also. Relational database provides the easiest way to manage the data but as the use of NoSQL is increasing it is becoming necessary to migrate the data from Relational to NoSQL databases. Various frameworks has been proposed previously which provides mechanisms for migration of data stored at warehouses in SQL, middle layer solutions which can provide facility of data to be stored in NoSQL databases to handle data which is not structured. This paper provides a literature review of some of the recent approaches proposed by various researchers to migrate data from relational to NoSQL databases. Some researchers proposed mechanisms for the co-existence of NoSQL and Relational databases together. This paper provides a summary of mechanisms which can be used for mapping data stored in Relational databases to NoSQL databases. Various techniques for data transformation and middle layer solutions are summarised in the paper.

  19. Study of relational nuclear databases and online services

    International Nuclear Information System (INIS)

    Fan Tieshuan; Guo Zhiyu; Liu Wenlong; Ye Weiguo; Feng Yuqing; Song Xiangxiang; Huang Gang; Hong Yingjue; Liu Tinjin; Chen Jinxiang; Tang Guoyou; Shi Zhaoming; Liu Chi; Chen Jiaer; Huang Xiaolong

    2004-01-01

    A relational nuclear database management and web-based services software system has been developed. Its objective is to allow users to access numerical and graphical representation of nuclear data and to easily reconstruct nuclear data in original standardized formats from the relational databases. It presents 9 relational nuclear libraries: 5 ENDF format neutron reaction databases (BROND), CENDL, ENDF, JEF and JENDL), the ENSDF database, the EXFOR database, the IAEA Photonuclear Data Library and the charged particle reaction data from the FENDL database. The computer programs providing support for database management and data retrievals are based on the Linux implementation of PHP and the MySQL software, and are platform-independent. The first version of this software was officially released in September 2001

  20. Clonal sets of a binary relation

    Science.gov (United States)

    Zedam, Lemnaouar; Pérez-Fernández, Raúl; Bouremel, Hassane; De Baets, Bernard

    2018-05-01

    In a recent paper, we have introduced the notion of clone relation of a given binary relation. Intuitively, two elements are said to be "clones" if they are related in the same way w.r.t. every other element. In this paper, we generalize this notion from pairs of elements to sets of elements of any cardinality, resulting in the introduction of clonal sets. We investigate the most important properties of clonal sets, paying particular attention to the introduction of the clonal closure operator, to the analysis of the (lattice) structure of the set of clonal sets and to a distance metric expressing how close two elements are to being clones.

  1. A Relational Database Model and Tools for Environmental Sound Recognition

    Directory of Open Access Journals (Sweden)

    Yuksel Arslan

    2017-12-01

    Full Text Available Environmental sound recognition (ESR has become a hot topic in recent years. ESR is mainly based on machine learning (ML and ML algorithms require first a training database. This database must comprise the sounds to be recognized and other related sounds. An ESR system needs the database during training, testing and in the production stage. In this paper, we present the design and pilot establishment of a database which will assists all researchers who want to establish an ESR system. This database employs relational database model which is not used for this task before. We explain in this paper design and implementation details of the database, data collection and load process. Besides we explain the tools and developed graphical user interface for a desktop application and for the WEB.

  2. Experience in running relational databases on clustered storage

    CERN Document Server

    Aparicio, Ruben Gaspar

    2015-01-01

    For past eight years, CERN IT Database group has based its backend storage on NAS (Network-Attached Storage) architecture, providing database access via NFS (Network File System) protocol. In last two and half years, our storage has evolved from a scale-up architecture to a scale-out one. This paper describes our setup and a set of functionalities providing key features to other services like Database on Demand [1] or CERN Oracle backup and recovery service. It also outlines possible trend of evolution that, storage for databases could follow.

  3. ALGORITHM FOR DYNAMIC SCALING RELATIONAL DATABASE IN CLOUDS

    Directory of Open Access Journals (Sweden)

    Alexander V. Boichenko

    2014-01-01

    Full Text Available This article analyzes the main methods of scalingdatabases (replication, sharding and their supportat the popular relational databases and NoSQLsolutions with different data models: document-oriented, key-value, column-oriented and graph.The article presents an algorithm for the dynamicscaling of a relational database (DB, that takesinto account the specifics of the different types of logic database model. This article was prepared with the support of RFBR (grant № 13-07-00749.

  4. Brain Tumor Database, a free relational database for collection and analysis of brain tumor patient information.

    Science.gov (United States)

    Bergamino, Maurizio; Hamilton, David J; Castelletti, Lara; Barletta, Laura; Castellan, Lucio

    2015-03-01

    In this study, we describe the development and utilization of a relational database designed to manage the clinical and radiological data of patients with brain tumors. The Brain Tumor Database was implemented using MySQL v.5.0, while the graphical user interface was created using PHP and HTML, thus making it easily accessible through a web browser. This web-based approach allows for multiple institutions to potentially access the database. The BT Database can record brain tumor patient information (e.g. clinical features, anatomical attributes, and radiological characteristics) and be used for clinical and research purposes. Analytic tools to automatically generate statistics and different plots are provided. The BT Database is a free and powerful user-friendly tool with a wide range of possible clinical and research applications in neurology and neurosurgery. The BT Database graphical user interface source code and manual are freely available at http://tumorsdatabase.altervista.org. © The Author(s) 2013.

  5. Cross: an OWL wrapper for teasoning on relational databases

    NARCIS (Netherlands)

    Champin, P.A.; Houben, G.J.P.M.; Thiran, Ph.; Parent, C.; Schewe, K.D.; Storey, V.C.; Thalheim, B.

    2007-01-01

    One of the challenges of the Semantic Web is to integrate the huge amount of information already available on the standard Web, usually stored in relational databases. In this paper, we propose a formalization of a logic model of relational databases, and a transformation of that model into OWL, a

  6. Pro SQL Server 2012 relational database design and implementation

    CERN Document Server

    Davidson, Louis

    2012-01-01

    Learn effective and scalable database design techniques in a SQL Server environment. Pro SQL Server 2012 Relational Database Design and Implementation covers everything from design logic that business users will understand, all the way to the physical implementation of design in a SQL Server database. Grounded in best practices and a solid understanding of the underlying theory, Louis Davidson shows how to "get it right" in SQL Server database design and lay a solid groundwork for the future use of valuable business data. Gives a solid foundation in best practices and relational theory Covers

  7. O-ODM Framework for Object-Relational Databases

    Directory of Open Access Journals (Sweden)

    Carlos Alberto Rombaldo Jr

    2012-09-01

    Full Text Available Object-Relational Databases introduce new features which allow manipulating objects in databases. At present, many DBMS offer resources to manipulate objects in database, but most application developers just map class to relations tables, failing to exploit the O-R model strength. The lack of tools that aid the database project contributes to this situation. This work presents O-ODM (Object-Object Database Mapping, a persistent framework that maps objects from OO applications to database objects. Persistent Frameworks have been used to aid developers, managing all access to DBMS. This kind of tool allows developers to persist objects without solid knowledge about DBMSs and specific languages, improving the developers’ productivity, mainly when a different DBMS is used. The results of some experiments using O-ODM are shown.

  8. Integrating Relational Databases and Constraint Languages

    DEFF Research Database (Denmark)

    Hansen, Michael Reichhardt; Hansen, Bo S.; Lucas, Peter

    1989-01-01

    A new structure of application programs is suggested, which separates the algorithmic parts from factual information (data and rules). The latter is to be stored in a repository that can be shared among multiple applications. It is argued that rules stating pure relations are better suited...... for sharing among different applications than procedural or functional rules because these latter rules always determine inputs and outputs.To support such a repository, an extended relational algebra is explored. This algebra serves as the semantic model for a proposed rules language and is the basis...

  9. A database paradigm for the management of DICOM-RT structure sets using a geographic information system

    International Nuclear Information System (INIS)

    Shao, Weber; Kupelian, Patrick A; Wang, Jason; Low, Daniel A; Ruan, Dan

    2014-01-01

    We devise a paradigm for representing the DICOM-RT structure sets in a database management system, in such way that secondary calculations of geometric information can be performed quickly from the existing contour definitions. The implementation of this paradigm is achieved using the PostgreSQL database system and the PostGIS extension, a geographic information system commonly used for encoding geographical map data. The proposed paradigm eliminates the overhead of retrieving large data records from the database, as well as the need to implement various numerical and data parsing routines, when additional information related to the geometry of the anatomy is desired.

  10. A database paradigm for the management of DICOM-RT structure sets using a geographic information system

    Science.gov (United States)

    Shao, Weber; Kupelian, Patrick A.; Wang, Jason; Low, Daniel A.; Ruan, Dan

    2014-03-01

    We devise a paradigm for representing the DICOM-RT structure sets in a database management system, in such way that secondary calculations of geometric information can be performed quickly from the existing contour definitions. The implementation of this paradigm is achieved using the PostgreSQL database system and the PostGIS extension, a geographic information system commonly used for encoding geographical map data. The proposed paradigm eliminates the overhead of retrieving large data records from the database, as well as the need to implement various numerical and data parsing routines, when additional information related to the geometry of the anatomy is desired.

  11. A new relational database structure and online interface for the HITRAN database

    International Nuclear Information System (INIS)

    Hill, Christian; Gordon, Iouli E.; Rothman, Laurence S.; Tennyson, Jonathan

    2013-01-01

    A new format for the HITRAN database is proposed. By storing the line-transition data in a number of linked tables described by a relational database schema, it is possible to overcome the limitations of the existing format, which have become increasingly apparent over the last few years as new and more varied data are being used by radiative-transfer models. Although the database in the new format can be searched using the well-established Structured Query Language (SQL), a web service, HITRANonline, has been deployed to allow users to make most common queries of the database using a graphical user interface in a web page. The advantages of the relational form of the database to ensuring data integrity and consistency are explored, and the compatibility of the online interface with the emerging standards of the Virtual Atomic and Molecular Data Centre (VAMDC) project is discussed. In particular, the ability to access HITRAN data using a standard query language from other websites, command line tools and from within computer programs is described. -- Highlights: • A new, interactive version of the HITRAN database is presented. • The data is stored in a structured fashion in a relational database. • The new HITRANonline interface offers increased functionality and easier error correction

  12. The Xeno-glycomics database (XDB): a relational database of qualitative and quantitative pig glycome repertoire.

    Science.gov (United States)

    Park, Hae-Min; Park, Ju-Hyeong; Kim, Yoon-Woo; Kim, Kyoung-Jin; Jeong, Hee-Jin; Jang, Kyoung-Soon; Kim, Byung-Gee; Kim, Yun-Gon

    2013-11-15

    In recent years, the improvement of mass spectrometry-based glycomics techniques (i.e. highly sensitive, quantitative and high-throughput analytical tools) has enabled us to obtain a large dataset of glycans. Here we present a database named Xeno-glycomics database (XDB) that contains cell- or tissue-specific pig glycomes analyzed with mass spectrometry-based techniques, including a comprehensive pig glycan information on chemical structures, mass values, types and relative quantities. It was designed as a user-friendly web-based interface that allows users to query the database according to pig tissue/cell types or glycan masses. This database will contribute in providing qualitative and quantitative information on glycomes characterized from various pig cells/organs in xenotransplantation and might eventually provide new targets in the α1,3-galactosyltransferase gene-knock out pigs era. The database can be accessed on the web at http://bioinformatics.snu.ac.kr/xdb.

  13. An Animated Introduction to Relational Databases for Many Majors

    Science.gov (United States)

    Dietrich, Suzanne W.; Goelman, Don; Borror, Connie M.; Crook, Sharon M.

    2015-01-01

    Database technology affects many disciplines beyond computer science and business. This paper describes two animations developed with images and color that visually and dynamically introduce fundamental relational database concepts and querying to students of many majors. The goal is for educators in diverse academic disciplines to incorporate the…

  14. A study on relational ENSDF databases and online services

    International Nuclear Information System (INIS)

    Fan Tieshuan; Song Xiangxiang; Ye Weiguo; Liu Wenlong; Feng Yuqing; Chen Jinxiang; Tang Guoyou; Shi Zhaoming; Guo Zhiyu; Huang Xiaolong; Liu Tingjin; China Inst. of Atomic Energy, Beijing

    2007-01-01

    A relational ENSDF library software is designed and released. Using relational databases, object-oriented programming and web-based technology, this software offers online data services of a centralized repository of data, including international ENSDF files for nuclear structure and decay data. The software can easily reconstruct nuclear data in original ENSDF format from the relational database. The computer programs providing support for database management and online data services via the Internet are based on the Linux implementation of PHP and the MySQL software, and platform independent in a wider sense. (authors)

  15. Implementation of a fuzzy relational database. Case study: academic tutoring

    Directory of Open Access Journals (Sweden)

    Ciro Saguay

    2017-02-01

    Full Text Available This paper describes the process of implementation of a diffused relational database in the practical case of the academic tutorials of the Faculty of Engineering Sciences of the Equinoctial Technological University (UTE. For the implementation, the ANSI-SPARC database architecture was used as the methodology, which abstracts the information into levels, at the external level the functional requirements were obtained, at the conceptual level, the diffused relational model was obtained. To achieve this model, we performed the transformation of the diffuse data through mathematical models using the Fuzzy-Lookup tool and at the physical level the diffused relational database was implemented. In addition, an user interface was developed using Java through which data is entered and queries are made to the diffused relational database to verify its operation.

  16. National Database for Clinical Trials Related to Mental Illness (NDCT)

    Data.gov (United States)

    U.S. Department of Health & Human Services — The National Database for Clinical Trials Related to Mental Illness (NDCT) is an extensible informatics platform for relevant data at all levels of biological and...

  17. Computer Aided Design for Soil Classification Relational Database ...

    African Journals Online (AJOL)

    unique firstlady

    engineering, several developers were asked what rules they applied to identify ... classification is actually a part of all good science. As Michalski ... by a large number of soil scientists. .... and use. The calculus relational database processing is.

  18. Using relational databases for improved sequence similarity searching and large-scale genomic analyses.

    Science.gov (United States)

    Mackey, Aaron J; Pearson, William R

    2004-10-01

    Relational databases are designed to integrate diverse types of information and manage large sets of search results, greatly simplifying genome-scale analyses. Relational databases are essential for management and analysis of large-scale sequence analyses, and can also be used to improve the statistical significance of similarity searches by focusing on subsets of sequence libraries most likely to contain homologs. This unit describes using relational databases to improve the efficiency of sequence similarity searching and to demonstrate various large-scale genomic analyses of homology-related data. This unit describes the installation and use of a simple protein sequence database, seqdb_demo, which is used as a basis for the other protocols. These include basic use of the database to generate a novel sequence library subset, how to extend and use seqdb_demo for the storage of sequence similarity search results and making use of various kinds of stored search results to address aspects of comparative genomic analysis.

  19. A C programmer's view of a relational database

    International Nuclear Information System (INIS)

    Clifford, T.; Katz, R.; Griffiths, C.

    1990-01-01

    The AGS Distributed Control System (AGSDCS) uses a relational database (Interbase) for the storage of all data on the host system network. This includes the static data which describes the components of the accelerator complex, as well as data for application-program setup and data records that are used in analysis. By creating a mapping of each relation in the database to a C record and providing general tools for relation (record) access, all the data in the database is available in a natural fashion to all the C programs on any of the nodes of the control system. In this paper the correspondence between the Interbase relations and the C structure is detailed with examples of C 'typedefs' and relation definitions. It is also shown how the relations can be put into memory and linked (related) together when fast access is needed by programs. (orig.)

  20. Relational databases for conditions data and event selection in ATLAS

    International Nuclear Information System (INIS)

    Viegas, F; Hawkings, R; Dimitrov, G

    2008-01-01

    The ATLAS experiment at LHC will make extensive use of relational databases in both online and offline contexts, running to O(TBytes) per year. Two of the most challenging applications in terms of data volume and access patterns are conditions data, making use of the LHC conditions database, COOL, and the TAG database, that stores summary event quantities allowing a rapid selection of interesting events. Both of these databases are being replicated to regional computing centres using Oracle Streams technology, in collaboration with the LCG 3D project. Database optimisation, performance tests and first user experience with these applications will be described, together with plans for first LHC data-taking and future prospects

  1. Relational databases for conditions data and event selection in ATLAS

    Energy Technology Data Exchange (ETDEWEB)

    Viegas, F; Hawkings, R; Dimitrov, G [CERN, CH-1211 Geneve 23 (Switzerland)

    2008-07-15

    The ATLAS experiment at LHC will make extensive use of relational databases in both online and offline contexts, running to O(TBytes) per year. Two of the most challenging applications in terms of data volume and access patterns are conditions data, making use of the LHC conditions database, COOL, and the TAG database, that stores summary event quantities allowing a rapid selection of interesting events. Both of these databases are being replicated to regional computing centres using Oracle Streams technology, in collaboration with the LCG 3D project. Database optimisation, performance tests and first user experience with these applications will be described, together with plans for first LHC data-taking and future prospects.

  2. The relational database system of KM3NeT

    Science.gov (United States)

    Albert, Arnauld; Bozza, Cristiano

    2016-04-01

    The KM3NeT Collaboration is building a new generation of neutrino telescopes in the Mediterranean Sea. For these telescopes, a relational database is designed and implemented for several purposes, such as the centralised management of accounts, the storage of all documentation about components and the status of the detector and information about slow control and calibration data. It also contains information useful during the construction and the data acquisition phases. Highlights in the database schema, storage and management are discussed along with design choices that have impact on performances. In most cases, the database is not accessed directly by applications, but via a custom designed Web application server.

  3. A C programmer's view of a relational database

    International Nuclear Information System (INIS)

    Clifford, T.; Katz, R.; Griffiths, C.

    1989-01-01

    The AGS Distributed Control System (AGSDCS) uses a relational database (Interbase) for the storage of all data on the host system network. This includes the static data which describes the components of the accelerator complex, as well as data for application program setup and data records that are used in analysis. By creating a mapping of each elation in the database to a C record and providing general tools for relation (record) across, all the data in the database is available in a natural fashion (in structures) to all the C programs on any of the nodes of the control system. In this paper the correspondence between the Interbase elations and the C structure is detailed with examples of C typedefs and relation definitions. It is also shown how the relations can be put into memory and linked (related) together when fast access is needed by programs. 1 ref., 2 tabs

  4. The Molecular Signatures Database (MSigDB) hallmark gene set collection.

    Science.gov (United States)

    Liberzon, Arthur; Birger, Chet; Thorvaldsdóttir, Helga; Ghandi, Mahmoud; Mesirov, Jill P; Tamayo, Pablo

    2015-12-23

    The Molecular Signatures Database (MSigDB) is one of the most widely used and comprehensive databases of gene sets for performing gene set enrichment analysis. Since its creation, MSigDB has grown beyond its roots in metabolic disease and cancer to include >10,000 gene sets. These better represent a wider range of biological processes and diseases, but the utility of the database is reduced by increased redundancy across, and heterogeneity within, gene sets. To address this challenge, here we use a combination of automated approaches and expert curation to develop a collection of "hallmark" gene sets as part of MSigDB. Each hallmark in this collection consists of a "refined" gene set, derived from multiple "founder" sets, that conveys a specific biological state or process and displays coherent expression. The hallmarks effectively summarize most of the relevant information of the original founder sets and, by reducing both variation and redundancy, provide more refined and concise inputs for gene set enrichment analysis.

  5. Girth 5 graphs from relative difference sets

    DEFF Research Database (Denmark)

    Jørgensen, Leif Kjær

    2005-01-01

    We consider the problem of construction of graphs with given degree $k$ and girth 5 and as few vertices as possible. We give a construction of a family of girth 5 graphs based on relative difference sets. This family contains the smallest known graph of degree 8 and girth 5 which was constructed ...

  6. Girth 5 graphs from relative difference sets

    DEFF Research Database (Denmark)

    Jørgensen, Leif Kjær

    We consider the problem of construction of graphs with given degree and girth 5 and as few vertices as possible. We give a construction of a family of girth 5 graphs based on relative difference sets. This family contains the smallest known graph of degree 8 and girth 5 which was constructed by G...

  7. A new relational database structure and online interface for the HITRAN database

    Science.gov (United States)

    Hill, Christian; Gordon, Iouli E.; Rothman, Laurence S.; Tennyson, Jonathan

    2013-11-01

    A new format for the HITRAN database is proposed. By storing the line-transition data in a number of linked tables described by a relational database schema, it is possible to overcome the limitations of the existing format, which have become increasingly apparent over the last few years as new and more varied data are being used by radiative-transfer models. Although the database in the new format can be searched using the well-established Structured Query Language (SQL), a web service, HITRANonline, has been deployed to allow users to make most common queries of the database using a graphical user interface in a web page. The advantages of the relational form of the database to ensuring data integrity and consistency are explored, and the compatibility of the online interface with the emerging standards of the Virtual Atomic and Molecular Data Centre (VAMDC) project is discussed. In particular, the ability to access HITRAN data using a standard query language from other websites, command line tools and from within computer programs is described.

  8. Technical Aspects of Interfacing MUMPS to an External SQL Relational Database Management System

    Science.gov (United States)

    Kuzmak, Peter M.; Walters, Richard F.; Penrod, Gail

    1988-01-01

    This paper describes an interface connecting InterSystems MUMPS (M/VX) to an external relational DBMS, the SYBASE Database Management System. The interface enables MUMPS to operate in a relational environment and gives the MUMPS language full access to a complete set of SQL commands. MUMPS generates SQL statements as ASCII text and sends them to the RDBMS. The RDBMS executes the statements and returns ASCII results to MUMPS. The interface suggests that the language features of MUMPS make it an attractive tool for use in the relational database environment. The approach described in this paper separates MUMPS from the relational database. Positioning the relational database outside of MUMPS promotes data sharing and permits a number of different options to be used for working with the data. Other languages like C, FORTRAN, and COBOL can access the RDBMS database. Advanced tools provided by the relational database vendor can also be used. SYBASE is an advanced high-performance transaction-oriented relational database management system for the VAX/VMS and UNIX operating systems. SYBASE is designed using a distributed open-systems architecture, and is relatively easy to interface with MUMPS.

  9. Evaluating parallel relational databases for medical data analysis.

    Energy Technology Data Exchange (ETDEWEB)

    Rintoul, Mark Daniel; Wilson, Andrew T.

    2012-03-01

    Hospitals have always generated and consumed large amounts of data concerning patients, treatment and outcomes. As computers and networks have permeated the hospital environment it has become feasible to collect and organize all of this data. This raises naturally the question of how to deal with the resulting mountain of information. In this report we detail a proof-of-concept test using two commercially available parallel database systems to analyze a set of real, de-identified medical records. We examine database scalability as data sizes increase as well as responsiveness under load from multiple users.

  10. Building spatio-temporal database model based on ontological approach using relational database environment

    International Nuclear Information System (INIS)

    Mahmood, N.; Burney, S.M.A.

    2017-01-01

    Everything in this world is encapsulated by space and time fence. Our daily life activities are utterly linked and related with other objects in vicinity. Therefore, a strong relationship exist with our current location, time (including past, present and future) and event through with we are moving as an object also affect our activities in life. Ontology development and its integration with database are vital for the true understanding of the complex systems involving both spatial and temporal dimensions. In this paper we propose a conceptual framework for building spatio-temporal database model based on ontological approach. We have used relational data model for modelling spatio-temporal data content and present our methodology with spatio-temporal ontological accepts and its transformation into spatio-temporal database model. We illustrate the implementation of our conceptual model through a case study related to cultivated land parcel used for agriculture to exhibit the spatio-temporal behaviour of agricultural land and related entities. Moreover, it provides a generic approach for designing spatiotemporal databases based on ontology. The proposed model is capable to understand the ontological and somehow epistemological commitments and to build spatio-temporal ontology and transform it into a spatio-temporal data model. Finally, we highlight the existing and future research challenges. (author)

  11. An algorithm to transform natural language into SQL queries for relational databases

    Directory of Open Access Journals (Sweden)

    Garima Singh

    2016-09-01

    Full Text Available Intelligent interface, to enhance efficient interactions between user and databases, is the need of the database applications. Databases must be intelligent enough to make the accessibility faster. However, not every user familiar with the Structured Query Language (SQL queries as they may not aware of structure of the database and they thus require to learn SQL. So, non-expert users need a system to interact with relational databases in their natural language such as English. For this, Database Management System (DBMS must have an ability to understand Natural Language (NL. In this research, an intelligent interface is developed using semantic matching technique which translates natural language query to SQL using set of production rules and data dictionary. The data dictionary consists of semantics sets for relations and attributes. A series of steps like lower case conversion, tokenization, speech tagging, database element and SQL element extraction is used to convert Natural Language Query (NLQ to SQL Query. The transformed query is executed and the results are obtained by the user. Intelligent Interface is the need of database applications to enhance efficient interaction between user and DBMS.

  12. Selecting a Relational Database Management System for Library Automation Systems.

    Science.gov (United States)

    Shekhel, Alex; O'Brien, Mike

    1989-01-01

    Describes the evaluation of four relational database management systems (RDBMSs) (Informix Turbo, Oracle 6.0 TPS, Unify 2000 and Relational Technology's Ingres 5.0) to determine which is best suited for library automation. The evaluation criteria used to develop a benchmark specifically designed to test RDBMSs for libraries are discussed. (CLB)

  13. A Relational Database of WHO Mortality Data Prepared to Facilitate Global Mortality Research

    Directory of Open Access Journals (Sweden)

    Albert de Roos

    2015-09-01

    Full Text Available Detailed world mortality data such as collected by the World Health Organization gives a wealth of information about causes of death worldwide over a time span of 60 year. However, the raw mortality data in text format as provided by the WHO is not directly suitable for systematic research and data mining. In this Data Paper, a relational database is presented that is created from the raw WHO mortality data set and includes mortality rates, an ICD-code table and country reference data. This enriched database, as a corpus of global mortality data, can be readily imported in relational databases but can also function as the data source for other types of databases. The use of this database can therefore greatly facilitate global epidemiological research that may provide new clues to genetic or environmental factors in the origins of diseases.

  14. A blind reversible robust watermarking scheme for relational databases.

    Science.gov (United States)

    Chang, Chin-Chen; Nguyen, Thai-Son; Lin, Chia-Chen

    2013-01-01

    Protecting the ownership and controlling the copies of digital data have become very important issues in Internet-based applications. Reversible watermark technology allows the distortion-free recovery of relational databases after the embedded watermark data are detected or verified. In this paper, we propose a new, blind, reversible, robust watermarking scheme that can be used to provide proof of ownership for the owner of a relational database. In the proposed scheme, a reversible data-embedding algorithm, which is referred to as "histogram shifting of adjacent pixel difference" (APD), is used to obtain reversibility. The proposed scheme can detect successfully 100% of the embedded watermark data, even if as much as 80% of the watermarked relational database is altered. Our extensive analysis and experimental results show that the proposed scheme is robust against a variety of data attacks, for example, alteration attacks, deletion attacks, mix-match attacks, and sorting attacks.

  15. Distortion-Free Watermarking Approach for Relational Database Integrity Checking

    Directory of Open Access Journals (Sweden)

    Lancine Camara

    2014-01-01

    Full Text Available Nowadays, internet is becoming a suitable way of accessing the databases. Such data are exposed to various types of attack with the aim to confuse the ownership proofing or the content protection. In this paper, we propose a new approach based on fragile zero watermarking for the authentication of numeric relational data. Contrary to some previous databases watermarking techniques which cause some distortions in the original database and may not preserve the data usability constraints, our approach simply seeks to generate the watermark from the original database. First, the adopted method partitions the database relation into independent square matrix groups. Then, group-based watermarks are securely generated and registered in a trusted third party. The integrity verification is performed by computing the determinant and the diagonal’s minor for each group. As a result, tampering can be localized up to attribute group level. Theoretical and experimental results demonstrate that the proposed technique is resilient against tuples insertion, tuples deletion, and attributes values modification attacks. Furthermore, comparison with recent related effort shows that our scheme performs better in detecting multifaceted attacks.

  16. A generic coordinate system and a set of generic variables for MFE database

    International Nuclear Information System (INIS)

    Miner, W.H. Jr.; Ross, D.W.; Solano, E.R.; Valanju, P.M.; Wiley, J.C.

    1993-01-01

    Over the last several years, profile data from nine different tokamaks have been stored in the magnetic fusion energy database (MFEDB). These data sets have come from a variety of sources and most are given in different coordinate systems. In order to attempt any intermachine analysis, it is convenient to transform these data sets into one generic coordinate system and to choose a uniform set of variable names. The authors describe the data sets from each tokamak indicating the source of the data and the coordinate system in which it is given. Next, they discuss the generic coordinate that has been adopted and show how it is implemented for each tokamak. Finally, the generic naming convention that has been adopted is discussed. It follows closely that which was used by Christiansen et al. for the ITER Global Energy Confinement H-Mode Database. For further clarification, they discuss the characteristics of the magnetic geometry given a Fourier representation of the magnetic equilibria

  17. Typed Sets as a Basis for Object-Oriented Database Schemas

    NARCIS (Netherlands)

    Balsters, H.; de By, R.A.; Zicari, R.

    The object-oriented data model TM is a language that is based on the formal theory of FM, a typed language with object-oriented features such as attributes and methods in the presence of subtyping. The general (typed) set constructs of FM allow one to deal with (database) constraints in TM. The

  18. Handling data redundancy and update anomalies in fuzzy relational databases

    International Nuclear Information System (INIS)

    Chen, G.; Kerre, E.E.

    1996-01-01

    This paper discusses various data redundancy and update anomaly problems that may occur with fuzzy relational databases. In coping with these problems to avoid undesirable consequences when fuzzy databases are updated via data insertion, deletion and modification, a number of fuzzy normal forms (e.g., F1NF, 0-F2NF, 0-F3NF, 0-FBCNF) are used to guide the design of relation schemes such that partial and transitive fuzzy functional dependencies (FFDs) between relation attributes are restricted. Based upon FFDs and related concepts, particular attention is paid to 0-F3NF and 0-FBCNF, and to the corresponding decomposition algorithms. These algorithms not only produce relation schemes which are either in 0-F3NF or in 0-FBCNF, but also guarantee that the information (data content and FFDs) with original schemes can be recovered with those resultant schemes

  19. Class dependency of fuzzy relational database using relational calculus and conditional probability

    Science.gov (United States)

    Deni Akbar, Mohammad; Mizoguchi, Yoshihiro; Adiwijaya

    2018-03-01

    In this paper, we propose a design of fuzzy relational database to deal with a conditional probability relation using fuzzy relational calculus. In the previous, there are several researches about equivalence class in fuzzy database using similarity or approximate relation. It is an interesting topic to investigate the fuzzy dependency using equivalence classes. Our goal is to introduce a formulation of a fuzzy relational database model using the relational calculus on the category of fuzzy relations. We also introduce general formulas of the relational calculus for the notion of database operations such as ’projection’, ’selection’, ’injection’ and ’natural join’. Using the fuzzy relational calculus and conditional probabilities, we introduce notions of equivalence class, redundant, and dependency in the theory fuzzy relational database.

  20. Fuzzy Relational Databases: Representational Issues and Reduction Using Similarity Measures.

    Science.gov (United States)

    Prade, Henri; Testemale, Claudette

    1987-01-01

    Compares and expands upon two approaches to dealing with fuzzy relational databases. The proposed similarity measure is based on a fuzzy Hausdorff distance and estimates the mismatch between two possibility distributions using a reduction process. The consequences of the reduction process on query evaluation are studied. (Author/EM)

  1. Use of Software Tools in Teaching Relational Database Design.

    Science.gov (United States)

    McIntyre, D. R.; And Others

    1995-01-01

    Discusses the use of state-of-the-art software tools in teaching a graduate, advanced, relational database design course. Results indicated a positive student response to the prototype of expert systems software and a willingness to utilize this new technology both in their studies and in future work applications. (JKP)

  2. Prolog as a Teaching Tool for Relational Database Interrogation.

    Science.gov (United States)

    Collier, P. A.; Samson, W. B.

    1982-01-01

    The use of the Prolog programing language is promoted as the language to use by anyone teaching a course in relational databases. A short introduction to Prolog is followed by a series of examples of queries. Several references are noted for anyone wishing to gain a deeper understanding. (MP)

  3. Project for a relational database for a radiotherapy service

    International Nuclear Information System (INIS)

    Esposito, R. D.; Planes Meseguer, D.; Dorado Rodriguez, M. P.

    2011-01-01

    The aim of this work is to extract useful data easily to improve our working protocols and to evaluate quantitatively the results of the treatments. To do this you are implementing a database (DB) relational practice that allows the use of this information stored.

  4. Benefits of a relational database for computerized management

    International Nuclear Information System (INIS)

    Shepherd, W.W.

    1991-01-01

    This paper reports on a computerized relational database which is the basis for a hazardous materials information management system which is comprehensive, effective, flexible and efficient. The system includes product information for Material Safety Data Sheets (MSDSs), labels, shipping, and the environment and is used in Dowell Schlumberger (DS) operations worldwide for a number of programs including planning, training, emergency response and regulatory compliance

  5. Advantages and disadvantages of relational and non-relational (NoSQL) databases for analytical tasks

    OpenAIRE

    Klapač, Milan

    2015-01-01

    This work focuses on NoSQL databases, their use for analytical tasks and on comparison of NoSQL databases with relational and OLAP databases. The aim is to analyse the benefits of NoSQL databases and their use for analytical purposes. The first part presents the basic principles of Business Intelligence, Data Warehousing, and Big Data. The second part deals with the key features of relational and NoSQL databases. The last part of the thesis describes the properties of four basic types of NoSQ...

  6. Setting-related influences on physical inactivity of older adults in residential care settings: a review.

    Science.gov (United States)

    Douma, Johanna G; Volkers, Karin M; Engels, Gwenda; Sonneveld, Marieke H; Goossens, Richard H M; Scherder, Erik J A

    2017-04-28

    Despite the detrimental effects of physical inactivity for older adults, especially aged residents of residential care settings may spend much time in inactive behavior. This may be partly due to their poorer physical condition; however, there may also be other, setting-related factors that influence the amount of inactivity. The aim of this review was to review setting-related factors (including the social and physical environment) that may contribute to the amount of older adults' physical inactivity in a wide range of residential care settings (e.g., nursing homes, assisted care facilities). Five databases were systematically searched for eligible studies, using the key words 'inactivity', 'care facilities', and 'older adults', including their synonyms and MeSH terms. Additional studies were selected from references used in articles included from the search. Based on specific eligibility criteria, a total of 12 studies were included. Quality of the included studies was assessed using the Mixed Methods Appraisal Tool (MMAT). Based on studies using different methodologies (e.g., interviews and observations), and of different quality (assessed quality range: 25-100%), we report several aspects related to the physical environment and caregivers. Factors of the physical environment that may be related to physical inactivity included, among others, the environment's compatibility with the abilities of a resident, the presence of equipment, the accessibility, security, comfort, and aesthetics of the environment/corridors, and possibly the presence of some specific areas. Caregiver-related factors included staffing levels, the available time, and the amount and type of care being provided. Inactivity levels in residential care settings may be reduced by improving several features of the physical environment and with the help of caregivers. Intervention studies could be performed in order to gain more insight into causal effects of improving setting-related factors on

  7. Efficient hemodynamic event detection utilizing relational databases and wavelet analysis

    Science.gov (United States)

    Saeed, M.; Mark, R. G.

    2001-01-01

    Development of a temporal query framework for time-oriented medical databases has hitherto been a challenging problem. We describe a novel method for the detection of hemodynamic events in multiparameter trends utilizing wavelet coefficients in a MySQL relational database. Storage of the wavelet coefficients allowed for a compact representation of the trends, and provided robust descriptors for the dynamics of the parameter time series. A data model was developed to allow for simplified queries along several dimensions and time scales. Of particular importance, the data model and wavelet framework allowed for queries to be processed with minimal table-join operations. A web-based search engine was developed to allow for user-defined queries. Typical queries required between 0.01 and 0.02 seconds, with at least two orders of magnitude improvement in speed over conventional queries. This powerful and innovative structure will facilitate research on large-scale time-oriented medical databases.

  8. AN EFFICIENT DATA MINING METHOD TO FIND FREQUENT ITEM SETS IN LARGE DATABASE USING TR- FCTM

    Directory of Open Access Journals (Sweden)

    Saravanan Suba

    2016-01-01

    Full Text Available Mining association rules in large database is one of most popular data mining techniques for business decision makers. Discovering frequent item set is the core process in association rule mining. Numerous algorithms are available in the literature to find frequent patterns. Apriori and FP-tree are the most common methods for finding frequent items. Apriori finds significant frequent items using candidate generation with more number of data base scans. FP-tree uses two database scans to find significant frequent items without using candidate generation. This proposed TR-FCTM (Transaction Reduction- Frequency Count Table Method discovers significant frequent items by generating full candidates once to form frequency count table with one database scan. Experimental results of TR-FCTM shows that this algorithm outperforms than Apriori and FP-tree.

  9. Evaluation of relational and NoSQL database architectures to manage genomic annotations.

    Science.gov (United States)

    Schulz, Wade L; Nelson, Brent G; Felker, Donn K; Durant, Thomas J S; Torres, Richard

    2016-12-01

    While the adoption of next generation sequencing has rapidly expanded, the informatics infrastructure used to manage the data generated by this technology has not kept pace. Historically, relational databases have provided much of the framework for data storage and retrieval. Newer technologies based on NoSQL architectures may provide significant advantages in storage and query efficiency, thereby reducing the cost of data management. But their relative advantage when applied to biomedical data sets, such as genetic data, has not been characterized. To this end, we compared the storage, indexing, and query efficiency of a common relational database (MySQL), a document-oriented NoSQL database (MongoDB), and a relational database with NoSQL support (PostgreSQL). When used to store genomic annotations from the dbSNP database, we found the NoSQL architectures to outperform traditional, relational models for speed of data storage, indexing, and query retrieval in nearly every operation. These findings strongly support the use of novel database technologies to improve the efficiency of data management within the biological sciences. Copyright © 2016 Elsevier Inc. All rights reserved.

  10. Databases

    Directory of Open Access Journals (Sweden)

    Nick Ryan

    2004-01-01

    Full Text Available Databases are deeply embedded in archaeology, underpinning and supporting many aspects of the subject. However, as well as providing a means for storing, retrieving and modifying data, databases themselves must be a result of a detailed analysis and design process. This article looks at this process, and shows how the characteristics of data models affect the process of database design and implementation. The impact of the Internet on the development of databases is examined, and the article concludes with a discussion of a range of issues associated with the recording and management of archaeological data.

  11. Database Independent Migration of Objects into an Object-Relational Database

    CERN Document Server

    Ali, A; Munir, K; Waseem-Hassan, M; Willers, I

    2002-01-01

    CERN's (European Organization for Nuclear Research) WISDOM project [1] deals with the replication of data between homogeneous sources in a Wide Area Network (WAN) using the extensible Markup Language (XML). The last phase of the WISDOM (Wide-area, database Independent Serialization of Distributed Objects for data Migration) project [2], indicates the future directions for this work to be to incorporate heterogeneous sources as compared to homogeneous sources as described by [3]. This work will become essential for the CERN community once the need to transfer their legacy data to some other source, other then Objectivity [4], arises. Oracle 9i - an Object-Relational Database (including support for abstract data types, ADTs) appears to be a potential candidate for the physics event store in the CERN CMS experiment as suggested by [4] & [5]. Consequently this database has been selected for study. As a result of this work the HEP community will get a tool for migrating their data from Objectivity to Oracle9i.

  12. The representation of manipulable solid objects in a relational database

    Science.gov (United States)

    Bahler, D.

    1984-01-01

    This project is concerned with the interface between database management and solid geometric modeling. The desirability of integrating computer-aided design, manufacture, testing, and management into a coherent system is by now well recognized. One proposed configuration for such a system uses a relational database management system as the central focus; the various other functions are linked through their use of a common data repesentation in the data manager, rather than communicating pairwise to integrate a geometric modeling capability with a generic relational data managemet system in such a way that well-formed questions can be posed and answered about the performance of the system as a whole. One necessary feature of any such system is simplification for purposes of anaysis; this and system performance considerations meant that a paramount goal therefore was that of unity and simplicity of the data structures used.

  13. Vertical partitioning of relational OLTP databases using integer programming

    DEFF Research Database (Denmark)

    Amossen, Rasmus Resen

    2010-01-01

    A way to optimize performance of relational row store databases is to reduce the row widths by vertically partition- ing tables into table fractions in order to minimize the number of irrelevant columns/attributes read by each transaction. This pa- per considers vertical partitioning algorithms...... for relational row- store OLTP databases with an H-store-like architecture, meaning that we would like to maximize the number of single-sited transactions. We present a model for the vertical partitioning problem that, given a schema together with a vertical partitioning and a workload, estimates the costs...... applied to the TPC-C benchmark and the heuristic is shown to obtain solutions with costs close to the ones found using the quadratic program....

  14. [A relational database to store Poison Centers calls].

    Science.gov (United States)

    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.

  15. Discovery of functional and approximate functional dependencies in relational databases

    Directory of Open Access Journals (Sweden)

    Ronald S. King

    2003-01-01

    Full Text Available This study develops the foundation for a simple, yet efficient method for uncovering functional and approximate functional dependencies in relational databases. The technique is based upon the mathematical theory of partitions defined over a relation's row identifiers. Using a levelwise algorithm the minimal non-trivial functional dependencies can be found using computations conducted on integers. Therefore, the required operations on partitions are both simple and fast. Additionally, the row identifiers provide the added advantage of nominally identifying the exceptions to approximate functional dependencies, which can be used effectively in practical data mining applications.

  16. A database for extract solutions in general relativity

    International Nuclear Information System (INIS)

    Horvath, I.; Horvath, Zs.; Lukacs, B.

    1993-07-01

    The field of equations of General Relativity are coupled second order partial differential equations. Therefore no general method is known to generate solutions for prescribed initial and boundary conditions. In addition, the meaning of the particular coordinates cannot be known until the metric is not found. Therefore the result must permit arbitrary coordinate transformations, i.e. most kinds of approximating methods are improper. So exact solutions are necessary and each one is an individual product. For storage, retrieval and comparison database handling techniques are needed. A database of 1359 articles is shown (cross-referred at least once) published in 156 more important journals. It can be handled by dBase III plus on IBM PC's. (author) 5 refs.; 5 tabs

  17. New tools and methods for direct programmatic access to the dbSNP relational database.

    Science.gov (United States)

    Saccone, Scott F; Quan, Jiaxi; Mehta, Gaurang; Bolze, Raphael; Thomas, Prasanth; Deelman, Ewa; Tischfield, Jay A; Rice, John P

    2011-01-01

    Genome-wide association studies often incorporate information from public biological databases in order to provide a biological reference for interpreting the results. The dbSNP database is an extensive source of information on single nucleotide polymorphisms (SNPs) for many different organisms, including humans. We have developed free software that will download and install a local MySQL implementation of the dbSNP relational database for a specified organism. We have also designed a system for classifying dbSNP tables in terms of common tasks we wish to accomplish using the database. For each task we have designed a small set of custom tables that facilitate task-related queries and provide entity-relationship diagrams for each task composed from the relevant dbSNP tables. In order to expose these concepts and methods to a wider audience we have developed web tools for querying the database and browsing documentation on the tables and columns to clarify the relevant relational structure. All web tools and software are freely available to the public at http://cgsmd.isi.edu/dbsnpq. Resources such as these for programmatically querying biological databases are essential for viably integrating biological information into genetic association experiments on a genome-wide scale.

  18. The KTOI Ecosystem Project Relational Database : a Report Prepared by Statistical Consulting Services for KTOI Describing the Key Components and Specifications of the KTOI Relational Database.

    Energy Technology Data Exchange (ETDEWEB)

    Shafii, Bahman [Statistical Consulting Services

    2009-09-24

    Data are the central focus of any research project. Their collection and analysis are crucial to meeting project goals, testing scientific hypotheses, and drawing relevant conclusions. Typical research projects often devote the majority of their resources to the collection, storage and analysis of data. Therefore, issues related to data quality should be of foremost concern. Data quality issues are even more important when conducting multifaceted studies involving several teams of researchers. Without the use of a standardized protocol, for example, independent data collection carried out by separate research efforts can lead to inconsistencies, confusion and errors throughout the larger project. A database management system can be utilized to help avoid all of the aforementioned problems. The centralization of data into a common relational unit, i.e. a relational database, shifts the responsibility for data quality and maintenance from multiple individuals to a single database manager, thus allowing data quality issues to be assessed and corrected in a timely manner. The database system also provides an easy mechanism for standardizing data components, such as variable names and values uniformly across all segments of a project. This is particularly an important issue when data are collected on a number of biological/physical response and explanatory variables from various locations and times. The database system can integrate all segments of a large study into one unit, while providing oversight and accessibility to the data collection process. The quality of all data collected is uniformly maintained and compatibility between research efforts ensured. While the physical database would exist in a central location, access will not be physically limited. Advanced database interfaces are created to operate over the internet utilizing a Web-based relational database, allowing project members to access their data from virtually anywhere. These interfaces provide users

  19. A Novel Approach: Chemical Relational Databases, and the ...

    Science.gov (United States)

    Mutagenicity and carcinogenicity databases are crucial resources for toxicologists and regulators involved in chemicals risk assessment. Until recently, existing public toxicity databases have been constructed primarily as

  20. cuticleDB: a relational database of Arthropod cuticular proteins

    Directory of Open Access Journals (Sweden)

    Willis Judith H

    2004-09-01

    Full Text Available Abstract Background The insect exoskeleton or cuticle is a bi-partite composite of proteins and chitin that provides protective, skeletal and structural functions. Little information is available about the molecular structure of this important complex that exhibits a helicoidal architecture. Scores of sequences of cuticular proteins have been obtained from direct protein sequencing, from cDNAs, and from genomic analyses. Most of these cuticular protein sequences contain motifs found only in arthropod proteins. Description cuticleDB is a relational database containing all structural proteins of Arthropod cuticle identified to date. Many come from direct sequencing of proteins isolated from cuticle and from sequences from cDNAs that share common features with these authentic cuticular proteins. It also includes proteins from the Drosophila melanogaster and the Anopheles gambiae genomes, that have been predicted to be cuticular proteins, based on a Pfam motif (PF00379 responsible for chitin binding in Arthropod cuticle. The total number of the database entries is 445: 370 derive from insects, 60 from Crustacea and 15 from Chelicerata. The database can be accessed from our web server at http://bioinformatics.biol.uoa.gr/cuticleDB. Conclusions CuticleDB was primarily designed to contain correct and full annotation of cuticular protein data. The database will be of help to future genome annotators. Users will be able to test hypotheses for the existence of known and also of yet unknown motifs in cuticular proteins. An analysis of motifs may contribute to understanding how proteins contribute to the physical properties of cuticle as well as to the precise nature of their interaction with chitin.

  1. Modeling Spatial Data within Object Relational-Databases

    Directory of Open Access Journals (Sweden)

    Iuliana BOTHA

    2011-03-01

    Full Text Available Spatial data can refer to elements that help place a certain object in a certain area. These elements are latitude, longitude, points, geometric figures represented by points, etc. However, when translating these elements into data that can be stored in a computer, it all comes down to numbers. The interesting part that requires attention is how to memorize them in order to obtain fast and various spatial queries. This part is where the DBMS (Data Base Management System that contains the database acts in. In this paper, we analyzed and compared two object-relational DBMS that work with spatial data: Oracle and PostgreSQL.

  2. UbSRD: The Ubiquitin Structural Relational Database.

    Science.gov (United States)

    Harrison, Joseph S; Jacobs, Tim M; Houlihan, Kevin; Van Doorslaer, Koenraad; Kuhlman, Brian

    2016-02-22

    The structurally defined ubiquitin-like homology fold (UBL) can engage in several unique protein-protein interactions and many of these complexes have been characterized with high-resolution techniques. Using Rosetta's structural classification tools, we have created the Ubiquitin Structural Relational Database (UbSRD), an SQL database of features for all 509 UBL-containing structures in the PDB, allowing users to browse these structures by protein-protein interaction and providing a platform for quantitative analysis of structural features. We used UbSRD to define the recognition features of ubiquitin (UBQ) and SUMO observed in the PDB and the orientation of the UBQ tail while interacting with certain types of proteins. While some of the interaction surfaces on UBQ and SUMO overlap, each molecule has distinct features that aid in molecular discrimination. Additionally, we find that the UBQ tail is malleable and can adopt a variety of conformations upon binding. UbSRD is accessible as an online resource at rosettadesign.med.unc.edu/ubsrd. Copyright © 2015 Elsevier Ltd. All rights reserved.

  3. The CEBAF Element Database and Related Operational Software

    Energy Technology Data Exchange (ETDEWEB)

    Larrieu, Theodore [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States); Slominski, Christopher [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States); Keesee, Marie [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States); Turner, Dennison [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States); Joyce, Michele [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States)

    2015-09-01

    The newly commissioned 12GeV CEBAF accelerator relies on a flexible, scalable and comprehensive database to define the accelerator. This database delivers the configuration for CEBAF operational tools, including hardware checkout, the downloadable optics model, control screens, and much more. The presentation will describe the flexible design of the CEBAF Element Database (CED), its features and assorted use case examples.

  4. Tailored patient information using a database system: Increasing patient compliance in a day surgery setting

    DEFF Research Database (Denmark)

    Grode, Jesper Nicolai Riis; Grode, Louise; Steinsøe, Ulla

    rehabilitation. The hospital is responsible of providing the patients with accurate information enabling the patient to prepare for surgery. Often patients are overloaded with uncoordinated information, letters and leaflets. The contribution of this project is a database system enabling health professionals...... to empower patients through tailored individualized information. Performing 6500 operations per year at our Day Surgery Centre, health professionals need a computer based system to create individualized information material. Health professionals must be able to adapt the information material quickly...... was established to support these requirements. A relational database system holds all information pieces in a granular, structured form. Each individual piece of information can be joined with other pieces thus supporting the tailoring of information. A web service layer caters for integration with output systems...

  5. Nonmaterialized Relations and the Support of Information Retrieval Applications by Relational Database Systems.

    Science.gov (United States)

    Lynch, Clifford A.

    1991-01-01

    Describes several aspects of the problem of supporting information retrieval system query requirements in the relational database management system (RDBMS) environment and proposes an extension to query processing called nonmaterialized relations. User interactions with information retrieval systems are discussed, and nonmaterialized relations are…

  6. A novel approach: chemical relational databases, and the role of the ISSCAN database on assessing chemical carcinogenicity.

    Science.gov (United States)

    Benigni, Romualdo; Bossa, Cecilia; Richard, Ann M; Yang, Chihae

    2008-01-01

    Mutagenicity and carcinogenicity databases are crucial resources for toxicologists and regulators involved in chemicals risk assessment. Until recently, existing public toxicity databases have been constructed primarily as "look-up-tables" of existing data, and most often did not contain chemical structures. Concepts and technologies originated from the structure-activity relationships science have provided powerful tools to create new types of databases, where the effective linkage of chemical toxicity with chemical structure can facilitate and greatly enhance data gathering and hypothesis generation, by permitting: a) exploration across both chemical and biological domains; and b) structure-searchability through the data. This paper reviews the main public databases, together with the progress in the field of chemical relational databases, and presents the ISSCAN database on experimental chemical carcinogens.

  7. METODE RESET PASSWORD LEVEL ROOT PADA RELATIONAL DATABASE MANAGEMENT SYSTEM (RDBMS MySQL

    Directory of Open Access Journals (Sweden)

    Taqwa Hariguna

    2011-08-01

    Full Text Available Database merupakan sebuah hal yang penting untuk menyimpan data, dengan database organisasi akan mendapatkan keuntungan dalam beberapa hal, seperti kecepatan akases dan mengurangi penggunaan kertas, namun dengan implementasi database tidak jarang administrator database lupa akan password yang digunakan, hal ini akan mempersulit dalam proses penangganan database. Penelitian ini bertujuan untuk menggali cara mereset password level root pada relational database management system MySQL.

  8. Initial validation of the prekindergarten Classroom Observation Tool and goal setting system for data-based coaching.

    Science.gov (United States)

    Crawford, April D; Zucker, Tricia A; Williams, Jeffrey M; Bhavsar, Vibhuti; Landry, Susan H

    2013-12-01

    Although coaching is a popular approach for enhancing the quality of Tier 1 instruction, limited research has addressed observational measures specifically designed to focus coaching on evidence-based practices. This study explains the development of the prekindergarten (pre-k) Classroom Observation Tool (COT) designed for use in a data-based coaching model. We examined psychometric characteristics of the COT and explored how coaches and teachers used the COT goal-setting system. The study included 193 coaches working with 3,909 pre-k teachers in a statewide professional development program. Classrooms served 3 and 4 year olds (n = 56,390) enrolled mostly in Title I, Head Start, and other need-based pre-k programs. Coaches used the COT during a 2-hr observation at the beginning of the academic year. Teachers collected progress-monitoring data on children's language, literacy, and math outcomes three times during the year. Results indicated a theoretically supported eight-factor structure of the COT across language, literacy, and math instructional domains. Overall interrater reliability among coaches was good (.75). Although correlations with an established teacher observation measure were small, significant positive relations between COT scores and children's literacy outcomes indicate promising predictive validity. Patterns of goal-setting behaviors indicate teachers and coaches set an average of 43.17 goals during the academic year, and coaches reported that 80.62% of goals were met. Both coaches and teachers reported the COT was a helpful measure for enhancing quality of Tier 1 instruction. Limitations of the current study and implications for research and data-based coaching efforts are discussed. PsycINFO Database Record (c) 2013 APA, all rights reserved.

  9. From simple vegetation surveys to management of biodiversity data. Problems in setting up a database for alpine flora

    Directory of Open Access Journals (Sweden)

    SPIEGELBERGER, Thomas

    2011-03-01

    Full Text Available This study discusses the establishment of the FlorEM database for alpine flora which intends to become a reference on plant diversity. The difficulties in setting up the database, its advantages and limitations are all presented here.

  10. MBGD update 2015: microbial genome database for flexible ortholog analysis utilizing a diverse set of genomic data.

    Science.gov (United States)

    Uchiyama, Ikuo; Mihara, Motohiro; Nishide, Hiroyo; Chiba, Hirokazu

    2015-01-01

    The microbial genome database for comparative analysis (MBGD) (available at http://mbgd.genome.ad.jp/) is a comprehensive ortholog database for flexible comparative analysis of microbial genomes, where the users are allowed to create an ortholog table among any specified set of organisms. Because of the rapid increase in microbial genome data owing to the next-generation sequencing technology, it becomes increasingly challenging to maintain high-quality orthology relationships while allowing the users to incorporate the latest genomic data available into an analysis. Because many of the recently accumulating genomic data are draft genome sequences for which some complete genome sequences of the same or closely related species are available, MBGD now stores draft genome data and allows the users to incorporate them into a user-specific ortholog database using the MyMBGD functionality. In this function, draft genome data are incorporated into an existing ortholog table created only from the complete genome data in an incremental manner to prevent low-quality draft data from affecting clustering results. In addition, to provide high-quality orthology relationships, the standard ortholog table containing all the representative genomes, which is first created by the rapid classification program DomClust, is now refined using DomRefine, a recently developed program for improving domain-level clustering using multiple sequence alignment information. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

  11. Data Model and Relational Database Design for Highway Runoff Water-Quality Metadata

    Science.gov (United States)

    Granato, Gregory E.; Tessler, Steven

    2001-01-01

    A National highway and urban runoff waterquality metadatabase was developed by the U.S. Geological Survey in cooperation with the Federal Highway Administration as part of the National Highway Runoff Water-Quality Data and Methodology Synthesis (NDAMS). The database was designed to catalog available literature and to document results of the synthesis in a format that would facilitate current and future research on highway and urban runoff. This report documents the design and implementation of the NDAMS relational database, which was designed to provide a catalog of available information and the results of an assessment of the available data. All the citations and the metadata collected during the review process are presented in a stratified metadatabase that contains citations for relevant publications, abstracts (or previa), and reportreview metadata for a sample of selected reports that document results of runoff quality investigations. The database is referred to as a metadatabase because it contains information about available data sets rather than a record of the original data. The database contains the metadata needed to evaluate and characterize how valid, current, complete, comparable, and technically defensible published and available information may be when evaluated for application to the different dataquality objectives as defined by decision makers. This database is a relational database, in that all information is ultimately linked to a given citation in the catalog of available reports. The main database file contains 86 tables consisting of 29 data tables, 11 association tables, and 46 domain tables. The data tables all link to a particular citation, and each data table is focused on one aspect of the information collected in the literature search and the evaluation of available information. This database is implemented in the Microsoft (MS) Access database software because it is widely used within and outside of government and is familiar to many

  12. Flexible network reconstruction from relational databases with Cytoscape and CytoSQL.

    Science.gov (United States)

    Laukens, Kris; Hollunder, Jens; Dang, Thanh Hai; De Jaeger, Geert; Kuiper, Martin; Witters, Erwin; Verschoren, Alain; Van Leemput, Koenraad

    2010-07-01

    Molecular interaction networks can be efficiently studied using network visualization software such as Cytoscape. The relevant nodes, edges and their attributes can be imported in Cytoscape in various file formats, or directly from external databases through specialized third party plugins. However, molecular data are often stored in relational databases with their own specific structure, for which dedicated plugins do not exist. Therefore, a more generic solution is presented. A new Cytoscape plugin 'CytoSQL' is developed to connect Cytoscape to any relational database. It allows to launch SQL ('Structured Query Language') queries from within Cytoscape, with the option to inject node or edge features of an existing network as SQL arguments, and to convert the retrieved data to Cytoscape network components. Supported by a set of case studies we demonstrate the flexibility and the power of the CytoSQL plugin in converting specific data subsets into meaningful network representations. CytoSQL offers a unified approach to let Cytoscape interact with relational databases. Thanks to the power of the SQL syntax, this tool can rapidly generate and enrich networks according to very complex criteria. The plugin is available at http://www.ptools.ua.ac.be/CytoSQL.

  13. Database of Literature on Guided Imagery and Music and Related Topics

    DEFF Research Database (Denmark)

    Bonde, Lars Ole

    2015-01-01

    A March 2015 update of the largest international database on literature on Guided Imagery and Music and related topics.......A March 2015 update of the largest international database on literature on Guided Imagery and Music and related topics....

  14. Heritage and scale: settings, boundaries and relations

    DEFF Research Database (Denmark)

    Harvey, David

    2015-01-01

    of individuals and communities, towns and cities, regions, nations, continents or globally – becomes ever more important. Partly reflecting this crisis of the national container, researchers have sought opportunities both through processes of ‘downscaling’, towards community, family and even personal forms...... relations. This paper examines how heritage is produced and practised, consumed and experienced, managed and deployed at a variety of scales, exploring how notions of scale, territory and boundedness have a profound effect on the heritage process. Drawing on the work of Doreen Massey and others, the paper...

  15. UNESCO Global Ethics Observatory: database on ethics related legislation and guidelines.

    NARCIS (Netherlands)

    Ang, T.W.; Have, H.A.M.J. ten; Solbakk, J.H.; Nys, H.

    2008-01-01

    The Database on Ethics Related Legislation and Guidelines was launched in March 2007 as the fourth database of the UNESCO Global Ethics Observatory system of databases in ethics of science and technology. The database offers a collection of legal instruments searchable by region, country, bioethical

  16. Matroidal Structure of Generalized Rough Sets Based on Tolerance Relations

    Directory of Open Access Journals (Sweden)

    Hui Li

    2014-01-01

    of the generalized rough set based on the tolerance relation. The matroid can also induce a new relation. We investigate the connection between the original tolerance relation and the induced relation.

  17. The Moroccan Genetic Disease Database (MGDD): a database for DNA variations related to inherited disorders and disease susceptibility.

    Science.gov (United States)

    Charoute, Hicham; Nahili, Halima; Abidi, Omar; Gabi, Khalid; Rouba, Hassan; Fakiri, Malika; Barakat, Abdelhamid

    2014-03-01

    National and ethnic mutation databases provide comprehensive information about genetic variations reported in a population or an ethnic group. In this paper, we present the Moroccan Genetic Disease Database (MGDD), a catalogue of genetic data related to diseases identified in the Moroccan population. We used the PubMed, Web of Science and Google Scholar databases to identify available articles published until April 2013. The Database is designed and implemented on a three-tier model using Mysql relational database and the PHP programming language. To date, the database contains 425 mutations and 208 polymorphisms found in 301 genes and 259 diseases. Most Mendelian diseases in the Moroccan population follow autosomal recessive mode of inheritance (74.17%) and affect endocrine, nutritional and metabolic physiology. The MGDD database provides reference information for researchers, clinicians and health professionals through a user-friendly Web interface. Its content should be useful to improve researches in human molecular genetics, disease diagnoses and design of association studies. MGDD can be publicly accessed at http://mgdd.pasteur.ma.

  18. Intuitionistic Neutrosophic Set Relations and Some of Its Properties

    OpenAIRE

    Monoranjan Bhowmik; Madhumangal Pal

    2010-01-01

    In this paper, we define intuitionistic neutrosophic set (INSs). In fact, all INSs are neutrosophic set but all neutrosophic sets are not INSs. We have shown by means of example that the definition for neutrosophic sets the complement and union are not true for INSs also give new definition of complement, union and intersection of INSs. We define the relation of INSs and four special type of INSs relations. Finally we have studied some properties of INSs relations.

  19. Extracting meronomy relations from domain-specific, textual corporate databases

    NARCIS (Netherlands)

    Ittoo, R.A.; Bouma, G.; Maruster, L.; Wortmann, J.C.; Hopfe, C.J.; Rezgui, Y.; Métais, E.; Preece, A.; Li, H.

    2010-01-01

    Various techniques for learning meronymy relationships from open-domain corpora exist. However, extracting meronymy relationships from domain-specific, textual corporate databases has been overlooked, despite numerous application opportunities particularly in domains like product development and/or

  20. A Methodolgy, Based on Analytical Modeling, for the Design of Parallel and Distributed Architectures for Relational Database Query Processors.

    Science.gov (United States)

    1987-12-01

    Application Programs Intelligent Disk Database Controller Manangement System Operating System Host .1’ I% Figure 2. Intelligent Disk Controller Application...8217. /- - • Database Control -% Manangement System Disk Data Controller Application Programs Operating Host I"" Figure 5. Processor-Per- Head data. Therefore, the...However. these ad- ditional properties have been proven in classical set and relation theory [75]. These additional properties are described here

  1. A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database

    Directory of Open Access Journals (Sweden)

    Tripputi Mark

    2006-10-01

    Full Text Available Abstract Background Many of the most popular pre-processing methods for Affymetrix expression arrays, such as RMA, gcRMA, and PLIER, simultaneously analyze data across a set of predetermined arrays to improve precision of the final measures of expression. One problem associated with these algorithms is that expression measurements for a particular sample are highly dependent on the set of samples used for normalization and results obtained by normalization with a different set may not be comparable. A related problem is that an organization producing and/or storing large amounts of data in a sequential fashion will need to either re-run the pre-processing algorithm every time an array is added or store them in batches that are pre-processed together. Furthermore, pre-processing of large numbers of arrays requires loading all the feature-level data into memory which is a difficult task even with modern computers. We utilize a scheme that produces all the information necessary for pre-processing using a very large training set that can be used for summarization of samples outside of the training set. All subsequent pre-processing tasks can be done on an individual array basis. We demonstrate the utility of this approach by defining a new version of the Robust Multi-chip Averaging (RMA algorithm which we refer to as refRMA. Results We assess performance based on multiple sets of samples processed over HG U133A Affymetrix GeneChip® arrays. We show that the refRMA workflow, when used in conjunction with a large, biologically diverse training set, results in the same general characteristics as that of RMA in its classic form when comparing overall data structure, sample-to-sample correlation, and variation. Further, we demonstrate that the refRMA workflow and reference set can be robustly applied to naïve organ types and to benchmark data where its performance indicates respectable results. Conclusion Our results indicate that a biologically diverse

  2. A relational database for physical data from TJ-II discharges

    International Nuclear Information System (INIS)

    Sanchez, E.; Portas, A.B.; Vega, J.

    2002-01-01

    A relational database (RDB) has been developed for classifying TJ-II experimental data according to physical criteria. Two objectives have been achieved: the design and the implementation of the database and the software tools for data access depending on a single software driver. TJ-II data were arranged in several tables with a flexible design, speedy performance, efficient search capacity and adaptability to meet present and future, requirements. The software has been developed to allow the access to the TJ-II RDB from a variety of computer platforms (ALPHA AXP/True64 UNIX, CRAY/UNICOS, Intel Linux, Sparc/Solaris and Intel/Windows 95/98/NT) and programming languages (FORTRAN and C/C++). The database resides in a Windows NT Server computer and is managed by Microsoft SQL Server. The access software is based on open network computing remote procedure call and follows client/server model. A server program running in the Windows NT computer controls data access. Operations on the database (through a local ODBC connection) are performed according to predefined permission protocols. A client library providing a set of basic functions for data integration and retrieval has been built in both static and dynamic link versions. The dynamic version is essential in accessing RDB data from 4GL environments (IDL and PV-WAVE among others)

  3. On the choice of an optimal value-set of qualitative attributes for information retrieval in databases

    International Nuclear Information System (INIS)

    Ryjov, A.; Loginov, D.

    1994-01-01

    The problem of choosing an optimal set of significances of qualitative attributes for information retrieval in databases is addressed. Given a particular database, a set of significances is called optimal if it results in the minimization of losses of information and information noise for information retrieval in the data base. Obviously, such a set of significances depends on the statistical parameters of the data base. The software, which enables to calculate on the basis of the statistical parameters of the given data base, the losses of information and the information noise for arbitrary sets of significances of qualitative attributes, is described. The software also permits to compare various sets of significances of qualitative attributes and to choose the optimal set of significances

  4. IAEA/NDS requirements related to database software

    International Nuclear Information System (INIS)

    Pronyaev, V.; Zerkin, V.

    2001-01-01

    Full text: The Nuclear Data Section of the IAEA disseminates data to the NDS users through Internet or on CD-ROMs and diskettes. OSU Web-server on DEC Alpha with Open VMS and Oracle/DEC DBMS provides via CGI scripts and FORTRAN retrieval programs access to the main nuclear databases supported by the networks of Nuclear Reactions Data Centres and Nuclear Structure and Decay Data Centres (CINDA, EXFOR, ENDF, NSR, ENSDF). For Web-access to data from other libraries and files, hyper-links to the files stored in ASCII text or other formats are used. Databases on CD-ROM are usually provided with some retrieval system. They are distributed in the run-time mode and comply with all license requirements for software used in their development. Although major development work is done now at the PC with MS-Windows and Linux, NDS may not at present, due to some institutional conditions, use these platforms for organization of the Web access to the data. Starting the end of 1999, the NDS, in co-operation with other data centers, began to work out the strategy of migration of main network nuclear data bases onto platforms other than DEC Alpha/Open VMS/DBMS. Because the different co-operating centers have their own preferences for hardware and software, the requirement to provide maximum platform independence for nuclear databases is the most important and desirable feature. This requirement determined some standards for the nuclear database software development. Taking into account the present state and future development, these standards can be formulated as follows: 1. All numerical data (experimental, evaluated, recommended values and their uncertainties) prepared for inclusion in the IAEA/NDS nuclear database should be submitted in the form of the ASCII text files and will be kept at NDS as a master file. 2. Databases with complex structure should be submitted in the form of the files with standard SQL statements describing all its components. All extensions of standard SQL

  5. Attenuation relation for strong motion in Eastern Java based on appropriate database and method

    Science.gov (United States)

    Mahendra, Rian; Rohadi, Supriyanto; Rudyanto, Ariska

    2017-07-01

    The selection and determination of attenuation relation has become important for seismic hazard assessment in active seismic region. This research initially constructs the appropriate strong motion database, including site condition and type of the earthquake. The data set consisted of large number earthquakes of 5 ≤ Mw ≤ 9 and distance less than 500 km that occurred around Java from 2009 until 2016. The location and depth of earthquake are being relocated using double difference method to improve the quality of database. Strong motion data from twelve BMKG's accelerographs which are located in east Java is used. The site condition is known by using dominant period and Vs30. The type of earthquake is classified into crustal earthquake, interface, and intraslab based on slab geometry analysis. A total of 10 Ground Motion Prediction Equations (GMPEs) are tested using Likelihood (Scherbaum et al., 2004) and Euclidean Distance Ranking method (Kale and Akkar, 2012) with the associated database. The evaluation of these methods lead to a set of GMPEs that can be applied for seismic hazard in East Java where the strong motion data is collected. The result of these methods found that there is still high deviation of GMPEs, so the writer modified some GMPEs using inversion method. Validation was performed by analysing the attenuation curve of the selected GMPE and observation data in period 2015 up to 2016. The results show that the selected GMPE is suitable for estimated PGA value in East Java.

  6. A web-based, relational database for studying glaciers in the Italian Alps

    Science.gov (United States)

    Nigrelli, G.; Chiarle, M.; Nuzzi, A.; Perotti, L.; Torta, G.; Giardino, M.

    2013-02-01

    Glaciers are among the best terrestrial indicators of climate change and thus glacier inventories have attracted a growing, worldwide interest in recent years. In Italy, the first official glacier inventory was completed in 1925 and 774 glacial bodies were identified. As the amount of data continues to increase, and new techniques become available, there is a growing demand for computer tools that can efficiently manage the collected data. The Research Institute for Geo-hydrological Protection of the National Research Council, in cooperation with the Departments of Computer Science and Earth Sciences of the University of Turin, created a database that provides a modern tool for storing, processing and sharing glaciological data. The database was developed according to the need of storing heterogeneous information, which can be retrieved through a set of web search queries. The database's architecture is server-side, and was designed by means of an open source software. The website interface, simple and intuitive, was intended to meet the needs of a distributed public: through this interface, any type of glaciological data can be managed, specific queries can be performed, and the results can be exported in a standard format. The use of a relational database to store and organize a large variety of information about Italian glaciers collected over the last hundred years constitutes a significant step forward in ensuring the safety and accessibility of such data. Moreover, the same benefits also apply to the enhanced operability for handling information in the future, including new and emerging types of data formats, such as geographic and multimedia files. Future developments include the integration of cartographic data, such as base maps, satellite images and vector data. The relational database described in this paper will be the heart of a new geographic system that will merge data, data attributes and maps, leading to a complete description of Italian glacial

  7. Epistemonikos: a free, relational, collaborative, multilingual database of health evidence.

    Science.gov (United States)

    Rada, Gabriel; Pérez, Daniel; Capurro, Daniel

    2013-01-01

    Epistemonikos (www.epistemonikos.org) is a free, multilingual database of the best available health evidence. This paper describes the design, development and implementation of the Epistemonikos project. Using several web technologies to store systematic reviews, their included articles, overviews of reviews and structured summaries, Epistemonikos is able to provide a simple and powerful search tool to access health evidence for sound decision making. Currently, Epistemonikos stores more than 115,000 unique documents and more than 100,000 relationships between documents. In addition, since its database is translated into 9 different languages, Epistemonikos ensures that non-English speaking decision-makers can access the best available evidence without language barriers.

  8. Data Rods: High Speed, Time-Series Analysis of Massive Cryospheric Data Sets Using Object-Oriented Database Methods

    Science.gov (United States)

    Liang, Y.; Gallaher, D. W.; Grant, G.; Lv, Q.

    2011-12-01

    Change over time, is the central driver of climate change detection. The goal is to diagnose the underlying causes, and make projections into the future. In an effort to optimize this process we have developed the Data Rod model, an object-oriented approach that provides the ability to query grid cell changes and their relationships to neighboring grid cells through time. The time series data is organized in time-centric structures called "data rods." A single data rod can be pictured as the multi-spectral data history at one grid cell: a vertical column of data through time. This resolves the long-standing problem of managing time-series data and opens new possibilities for temporal data analysis. This structure enables rapid time- centric analysis at any grid cell across multiple sensors and satellite platforms. Collections of data rods can be spatially and temporally filtered, statistically analyzed, and aggregated for use with pattern matching algorithms. Likewise, individual image pixels can be extracted to generate multi-spectral imagery at any spatial and temporal location. The Data Rods project has created a series of prototype databases to store and analyze massive datasets containing multi-modality remote sensing data. Using object-oriented technology, this method overcomes the operational limitations of traditional relational databases. To demonstrate the speed and efficiency of time-centric analysis using the Data Rods model, we have developed a sea ice detection algorithm. This application determines the concentration of sea ice in a small spatial region across a long temporal window. If performed using traditional analytical techniques, this task would typically require extensive data downloads and spatial filtering. Using Data Rods databases, the exact spatio-temporal data set is immediately available No extraneous data is downloaded, and all selected data querying occurs transparently on the server side. Moreover, fundamental statistical

  9. Computer Aided Design for Soil Classification Relational Database ...

    African Journals Online (AJOL)

    The paper focuses on the problems associated with classification, storage and retrieval of information on soil data, such as the incompatibility of soil data semantics; inadequate documentation, and lack of indexing; hence it is pretty difficult to efficiently access large database. Consequently, information on soil is very difficult ...

  10. Development of a Relational Database for Learning Management Systems

    Science.gov (United States)

    Deperlioglu, Omer; Sarpkaya, Yilmaz; Ergun, Ertugrul

    2011-01-01

    In today's world, Web-Based Distance Education Systems have a great importance. Web-based Distance Education Systems are usually known as Learning Management Systems (LMS). In this article, a database design, which was developed to create an educational institution as a Learning Management System, is described. In this sense, developed Learning…

  11. On the selection of Secondary Indices in Relational Databases

    NARCIS (Netherlands)

    Choenni, R.S.; Blanken, Henk; Chang, Thiel

    1993-01-01

    An important problem in the physical design of databases is the selection of secondary indices. In general, this problem cannot be solved in an optimal way due to the complexity of the selection process. Often use is made of heuristics such as the well-known ADD and DROP algorithms. In this paper it

  12. A consolidated and standardized relational database for ER data

    International Nuclear Information System (INIS)

    Zygmunt, B.C.

    1995-01-01

    The three US Department of Energy (DOE) installations on the Oak Ridge Reservation (ORR) (Oak Ridge National Laboratory, Y-12, and K-25) were established during World War II as part of the Manhattan Project that ''built the bomb.'' That research, and work in more recent years, has resulted in the generation of radioactive materials and other toxic wastes. Lockheed Martin Energy Systems manages the three Oak Ridge installations (as well as the Environmental Restoration (ER) programs at the DOE plants in Portsmouth, Ohio, and Paducah, Kentucky). DOE Oak Ridge Operations has been mandated by federal and state agreements to provide a consolidated repository of environmental data and is tasked to support environmental data management activities at all five installations. The Oak Ridge Environmental Information System (OREIS) was initiated to fulfill these requirements. The primary use of OREIS data is to provide access to project results by regulators. A secondary use is to serve as background data for other projects. This paper discusses the benefits of a consolidated and standardized database; reasons for resistance to the consolidation of data; implementing a consolidated database, including attempts at standardization, deciding what to include in the consolidated database, establishing lists of valid values, and addressing quality control (QC) issues; and the evolution of a consolidated database, which includes developing and training a user community, dealing with configuration control issues, and incorporating historical data. OREIS is used to illustrate these topics

  13. Exploiting the Power of Relational Databases for Efficient Stream Processing

    NARCIS (Netherlands)

    E. Liarou (Erietta); R.A. Goncalves (Romulo); S. Idreos (Stratos)

    2009-01-01

    textabstractStream applications gained significant popularity over the last years that lead to the development of specialized stream engines. These systems are designed from scratch with a different philosophy than nowadays database engines in order to cope with the stream applications

  14. Managing XML Data to optimize Performance into Object-Relational Databases

    Directory of Open Access Journals (Sweden)

    Iuliana BOTHA

    2011-06-01

    Full Text Available This paper propose some possibilities for manage XML data in order to optimize performance into object-relational databases. It is detailed the possibility of storing XML data into such databases, using for exemplification an Oracle database and there are tested some optimizing techniques of the queries over XMLType tables, like indexing and partitioning tables.

  15. Simple Logic for Big Problems: An Inside Look at Relational Databases.

    Science.gov (United States)

    Seba, Douglas B.; Smith, Pat

    1982-01-01

    Discusses database design concept termed "normalization" (process replacing associations between data with associations in two-dimensional tabular form) which results in formation of relational databases (they are to computers what dictionaries are to spoken languages). Applications of the database in serials control and complex systems…

  16. Relational Database Extension Oriented, Self-adaptive Imagery Pyramid Model

    Directory of Open Access Journals (Sweden)

    HU Zhenghua

    2015-06-01

    Full Text Available With the development of remote sensing technology, especially the improvement of sensor resolution, the amount of image data is increasing. This puts forward higher requirements to manage huge amount of data efficiently and intelligently. And how to access massive remote sensing data with efficiency and smartness becomes an increasingly popular topic. In this paper, against current development status of Spatial Data Management System, we proposed a self-adaptive strategy for image blocking and a method for LoD(level of detailmodel construction that adapts, with the combination of database storage, network transmission and the hardware of the client. Confirmed by experiments, this imagery management mechanism can achieve intelligent and efficient storage and access in a variety of different conditions of database, network and client. This study provides a feasible idea and method for efficient image data management, contributing to the efficient access and management for remote sensing image data which are based on database technology under network environment of C/S architecture.

  17. Performance assessment of EMR systems based on post-relational database.

    Science.gov (United States)

    Yu, Hai-Yan; Li, Jing-Song; Zhang, Xiao-Guang; Tian, Yu; Suzuki, Muneou; Araki, Kenji

    2012-08-01

    Post-relational databases provide high performance and are currently widely used in American hospitals. As few hospital information systems (HIS) in either China or Japan are based on post-relational databases, here we introduce a new-generation electronic medical records (EMR) system called Hygeia, which was developed with the post-relational database Caché and the latest platform Ensemble. Utilizing the benefits of a post-relational database, Hygeia is equipped with an "integration" feature that allows all the system users to access data-with a fast response time-anywhere and at anytime. Performance tests of databases in EMR systems were implemented in both China and Japan. First, a comparison test was conducted between a post-relational database, Caché, and a relational database, Oracle, embedded in the EMR systems of a medium-sized first-class hospital in China. Second, a user terminal test was done on the EMR system Izanami, which is based on the identical database Caché and operates efficiently at the Miyazaki University Hospital in Japan. The results proved that the post-relational database Caché works faster than the relational database Oracle and showed perfect performance in the real-time EMR system.

  18. NODC Standard Product: World Ocean Database 1998 version 2 (5 disc set) (NODC Accession 0098461)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Since the first release of WOD98, the staff of the Ocean Climate Laboratory have performed additional quality control on the database. Version 2.0 also includes...

  19. NODC Standard Product: World Ocean Database 2009 (2 disc set) (NCEI Accession 0094887)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — World Ocean Database 2009 (WOD09) is a collection of scientifically quality-controlled ocean profile and plankton data that includes measurements of temperature,...

  20. Object-relational database design-exploiting object orientation at the ...

    African Journals Online (AJOL)

    This paper applies the object-relational database paradigm in the design of a Health Management Information System. The class design, mapping of object classes to relational tables, the representation of inheritance hierarchies, and the appropriate database schema are all examined. Keywords: object relational ...

  1. Mandatory and Location-Aware Access Control for Relational Databases

    Science.gov (United States)

    Decker, Michael

    Access control is concerned with determining which operations a particular user is allowed to perform on a particular electronic resource. For example, an access control decision could say that user Alice is allowed to perform the operation read (but not write) on the resource research report. With conventional access control this decision is based on the user's identity whereas the basic idea of Location-Aware Access Control (LAAC) is to evaluate also a user's current location when making the decision if a particular request should be granted or denied. LAAC is an interesting approach for mobile information systems because these systems are exposed to specific security threads like the loss of a device. Some data models for LAAC can be found in literature, but almost all of them are based on RBAC and none of them is designed especially for Database Management Systems (DBMS). In this paper we therefore propose a LAAC-approach for DMBS and describe a prototypical implementation of that approach that is based on database triggers.

  2. Setting-related influences on physical inactivity of older adults in residential care settings : a review

    NARCIS (Netherlands)

    Douma, Johanna G.; Volkers, Karin M.; Engels, Gwenda; Sonneveld, Marieke H.; Goossens, Richard H. M.; Scherder, Erik J. A.

    2017-01-01

    Background: Despite the detrimental effects of physical inactivity for older adults, especially aged residents of residential care settings may spend much time in inactive behavior. This may be partly due to their poorer physical condition; however, there may also be other, setting-related factors

  3. MAT-DB - A database for nuclear energy related materials data

    International Nuclear Information System (INIS)

    Over, H.H.

    2009-01-01

    The web-enabled materials database (Mat-DB) of JRC-IE has a long-term history in storing materials test data resulting from European and international research projects. The database structure and the user-guidance has bee permanently updated improved and optimized. The database is implemented in the secure ODIN portal: https://odin.jrc.ec.europa.eu of JRC-IE. This architecture guarantees fast access to confidential and public data and documentation which are stored in an inter-related document management database (DoMa). It is a part of JRC's nuclear knowledge management. Mat-DB hosts the whole pool of IAEA surveillance data of reactor pressure vessel materials from different nuclear power plants of the member states. Mat-DB contains also thousands of European GEN IV reactor systems related R and D materials data which are an important basis for the evaluating and extrapolating design data for candidate materials and setting up design rules covering high temperature exposure, irradiation and corrosion. Those data and rules would match also fusion related components. Mat-DB covers thermo-mechanical and thermo-physical properties data of engineering alloys at low, elevated and high temperatures for base materials and joints, including irradiated materials for nuclear fission and fusion applications, thermal barrier coated materials for gas turbines and properties of corroded materials. The corrosion part refers to weight gain/loss data of high temperature exposed engineering alloys and ceramic materials. For each test type the database structure reflects international test standards and recommendations. Mat-DB features an extensive library of evaluation programs for web-enabled assessment of uniaxial creep, fatigue, crack growth and high temperature corrosion properties. Evaluations can be performed after data retrieval or independently of Mat-DB by transferring other materials data in a given format to the programs. The fast evaluation processes help the user to

  4. An Ontology as a Tool for Representing Fuzzy Data in Relational Databases

    Directory of Open Access Journals (Sweden)

    Carmen Martinez-Cruz

    2012-11-01

    Full Text Available Several applications to represent classical or fuzzy data in databases have been developed in the last two decades. However, these representations present some limitations specially related with the system portability and complexity. Ontologies provides a mechanism to represent data in an implementation-independent and web-accessible way. To get advantage of this, in this paper, an ontology, that represents fuzzy relational database model, has been redefined to communicate users or applications with fuzzy data stored in fuzzy databases. The communication channel established between the ontology and any Relational Database Management System (RDBMS is analysed in depth throughout the text to justify some of the advantages of the system: expressiveness, portability and platform heterogeneity. Moreover, some tools have been developed to define and manage fuzzy and classical data in relational databases using this ontology. Even an application that performs fuzzy queries using the same technology is included in this proposal together with some examples using real databases.

  5. Logical database design principles

    CERN Document Server

    Garmany, John; Clark, Terry

    2005-01-01

    INTRODUCTION TO LOGICAL DATABASE DESIGNUnderstanding a Database Database Architectures Relational Databases Creating the Database System Development Life Cycle (SDLC)Systems Planning: Assessment and Feasibility System Analysis: RequirementsSystem Analysis: Requirements Checklist Models Tracking and Schedules Design Modeling Functional Decomposition DiagramData Flow Diagrams Data Dictionary Logical Structures and Decision Trees System Design: LogicalSYSTEM DESIGN AND IMPLEMENTATION The ER ApproachEntities and Entity Types Attribute Domains AttributesSet-Valued AttributesWeak Entities Constraint

  6. A searching and reporting system for relational databases using a graph-based metadata representation.

    Science.gov (United States)

    Hewitt, Robin; Gobbi, Alberto; Lee, Man-Ling

    2005-01-01

    Relational databases are the current standard for storing and retrieving data in the pharmaceutical and biotech industries. However, retrieving data from a relational database requires specialized knowledge of the database schema and of the SQL query language. At Anadys, we have developed an easy-to-use system for searching and reporting data in a relational database to support our drug discovery project teams. This system is fast and flexible and allows users to access all data without having to write SQL queries. This paper presents the hierarchical, graph-based metadata representation and SQL-construction methods that, together, are the basis of this system's capabilities.

  7. A RELATIONAL DATABASE APPROACH TO THE JOB SHOP SCHEDULING PROBLEM

    Directory of Open Access Journals (Sweden)

    P. Lindeque

    2012-01-01

    Full Text Available

    ENGLISH ABSTRACT: This paper will attempt to illuminate the advantages of an approach to the job shop scheduling problem using priority based search algorithms and database technology. It will use as basis a system developed for and implemented at a large manufacturing plant. The paper will also attempt to make some predictions as to future developments in these techniques and look at the possibility of including new technologies such as expert systems.

    AFRIKAANSE OPSOMMING: Die voordele en toepaslikheid van prioriteits-gebaseerde soek-algoritmes en databasisstelsels op die taakwerkswinkelprobleem sal in hierdie artikel uitgelig word. 'n Stelsel wat by 'n groot vervaardigingsonderneming geimplementeer is, sal as uitgangspunt gebruik word. Toekomstige ontwikkelings in bogenoemde tegnieke en die moontlike insluiting van ekspertstelsels sal ook ondersoek word.

  8. Ontology-driven extraction of event logs from relational databases

    NARCIS (Netherlands)

    Calvanese, Diego; Montali, Marco; Syamsiyah, Alifah; van der Aalst, Wil M P; Reichert, M.; Reijers, H.A.

    2015-01-01

    Process mining is an emerging discipline whose aim is to discover, monitor and improve real processes by extracting knowledge from event logs representing actual process executions in a given organizational setting. In this light, it can be applied only if faithful event logs, adhering to accepted

  9. ARCTOS: a relational database relating specimens, specimen-based science, and archival documentation

    Science.gov (United States)

    Jarrell, Gordon H.; Ramotnik, Cindy A.; McDonald, D.L.

    2010-01-01

    Data are preserved when they are perpetually discoverable, but even in the Information Age, discovery of legacy data appropriate to particular investigations is uncertain. Secure Internet storage is necessary but insufficient. Data can be discovered only when they are adequately described, and visibility increases markedly if the data are related to other data that are receiving usage. Such relationships can be built within (1) the framework of a relational database, or (1) they can be built among separate resources, within the framework of the Internet. Evolving primarily around biological collections, Arctos is a database that does both of these tasks. It includes data structures for a diversity of specimen attributes, essentially all collection-management tasks, plus literature citations, project descriptions, etc. As a centralized collaboration of several university museums, Arctos is an ideal environment for capitalizing on the many relationships that often exist between items in separate collections. Arctos is related to NIH’s DNA-sequence repository (GenBank) with record-to-record reciprocal linkages, and it serves data to several discipline-specific web portals, including the Global Biodiversity Information Network (GBIF). The University of Alaska Museum’s paleontological collection is Arctos’s recent extension beyond the constraints of neontology. With about 1.3 million cataloged items, additional collections are being added each year.

  10. NODC Standard Product: World Ocean Database 1998 version 1 (5 disc set) (NODC Accession 0095340)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The World Ocean Database 1998 (WOD98) is comprised of five CD-ROMs containing profile and plankton/biomass data in compressed format. WOD98-01 through WOD98-04...

  11. Building a GIS database for a typical urban setting v(a case study of ...

    African Journals Online (AJOL)

    An attempt is being made in this paper to build a GIS database for the Federal University of Technology Yola, using the ArcView GIS package. The spatial data itself was achieved by using conventional field survey methods. It was then later transferred into the computer via a scanner. The attribute data, which were collated ...

  12. A Quantitative Analysis of the Extrinsic and Intrinsic Turnover Factors of Relational Database Support Professionals

    Science.gov (United States)

    Takusi, Gabriel Samuto

    2010-01-01

    This quantitative analysis explored the intrinsic and extrinsic turnover factors of relational database support specialists. Two hundred and nine relational database support specialists were surveyed for this research. The research was conducted based on Hackman and Oldham's (1980) Job Diagnostic Survey. Regression analysis and a univariate ANOVA…

  13. Alternatives to relational database: comparison of NoSQL and XML approaches for clinical data storage.

    Science.gov (United States)

    Lee, Ken Ka-Yin; Tang, Wai-Choi; Choi, Kup-Sze

    2013-04-01

    Clinical data are dynamic in nature, often arranged hierarchically and stored as free text and numbers. Effective management of clinical data and the transformation of the data into structured format for data analysis are therefore challenging issues in electronic health records development. Despite the popularity of relational databases, the scalability of the NoSQL database model and the document-centric data structure of XML databases appear to be promising features for effective clinical data management. In this paper, three database approaches--NoSQL, XML-enabled and native XML--are investigated to evaluate their suitability for structured clinical data. The database query performance is reported, together with our experience in the databases development. The results show that NoSQL database is the best choice for query speed, whereas XML databases are advantageous in terms of scalability, flexibility and extensibility, which are essential to cope with the characteristics of clinical data. While NoSQL and XML technologies are relatively new compared to the conventional relational database, both of them demonstrate potential to become a key database technology for clinical data management as the technology further advances. Copyright © 2012 Elsevier Ireland Ltd. All rights reserved.

  14. Simulation and Verification of Synchronous Set Relations in Rewriting Logic

    Science.gov (United States)

    Rocha, Camilo; Munoz, Cesar A.

    2011-01-01

    This paper presents a mathematical foundation and a rewriting logic infrastructure for the execution and property veri cation of synchronous set relations. The mathematical foundation is given in the language of abstract set relations. The infrastructure consists of an ordersorted rewrite theory in Maude, a rewriting logic system, that enables the synchronous execution of a set relation provided by the user. By using the infrastructure, existing algorithm veri cation techniques already available in Maude for traditional asynchronous rewriting, such as reachability analysis and model checking, are automatically available to synchronous set rewriting. The use of the infrastructure is illustrated with an executable operational semantics of a simple synchronous language and the veri cation of temporal properties of a synchronous system.

  15. Utilization of accident databases and fuzzy sets to estimate frequency of HazMat transport accidents

    International Nuclear Information System (INIS)

    Qiao Yuanhua; Keren, Nir; Mannan, M. Sam

    2009-01-01

    Risk assessment and management of transportation of hazardous materials (HazMat) require the estimation of accident frequency. This paper presents a methodology to estimate hazardous materials transportation accident frequency by utilizing publicly available databases and expert knowledge. The estimation process addresses route-dependent and route-independent variables. Negative binomial regression is applied to an analysis of the Department of Public Safety (DPS) accident database to derive basic accident frequency as a function of route-dependent variables, while the effects of route-independent variables are modeled by fuzzy logic. The integrated methodology provides the basis for an overall transportation risk analysis, which can be used later to develop a decision support system.

  16. PACSY, a relational database management system for protein structure and chemical shift analysis.

    Science.gov (United States)

    Lee, Woonghee; Yu, Wookyung; Kim, Suhkmann; Chang, Iksoo; Lee, Weontae; Markley, John L

    2012-10-01

    PACSY (Protein structure And Chemical Shift NMR spectroscopY) is a relational database management system that integrates information from the Protein Data Bank, the Biological Magnetic Resonance Data Bank, and the Structural Classification of Proteins database. PACSY provides three-dimensional coordinates and chemical shifts of atoms along with derived information such as torsion angles, solvent accessible surface areas, and hydrophobicity scales. PACSY consists of six relational table types linked to one another for coherence by key identification numbers. Database queries are enabled by advanced search functions supported by an RDBMS server such as MySQL or PostgreSQL. PACSY enables users to search for combinations of information from different database sources in support of their research. Two software packages, PACSY Maker for database creation and PACSY Analyzer for database analysis, are available from http://pacsy.nmrfam.wisc.edu.

  17. PACSY, a relational database management system for protein structure and chemical shift analysis

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Woonghee, E-mail: whlee@nmrfam.wisc.edu [University of Wisconsin-Madison, National Magnetic Resonance Facility at Madison, and Biochemistry Department (United States); Yu, Wookyung [Center for Proteome Biophysics, Pusan National University, Department of Physics (Korea, Republic of); Kim, Suhkmann [Pusan National University, Department of Chemistry and Chemistry Institute for Functional Materials (Korea, Republic of); Chang, Iksoo [Center for Proteome Biophysics, Pusan National University, Department of Physics (Korea, Republic of); Lee, Weontae, E-mail: wlee@spin.yonsei.ac.kr [Yonsei University, Structural Biochemistry and Molecular Biophysics Laboratory, Department of Biochemistry (Korea, Republic of); Markley, John L., E-mail: markley@nmrfam.wisc.edu [University of Wisconsin-Madison, National Magnetic Resonance Facility at Madison, and Biochemistry Department (United States)

    2012-10-15

    PACSY (Protein structure And Chemical Shift NMR spectroscopY) is a relational database management system that integrates information from the Protein Data Bank, the Biological Magnetic Resonance Data Bank, and the Structural Classification of Proteins database. PACSY provides three-dimensional coordinates and chemical shifts of atoms along with derived information such as torsion angles, solvent accessible surface areas, and hydrophobicity scales. PACSY consists of six relational table types linked to one another for coherence by key identification numbers. Database queries are enabled by advanced search functions supported by an RDBMS server such as MySQL or PostgreSQL. PACSY enables users to search for combinations of information from different database sources in support of their research. Two software packages, PACSY Maker for database creation and PACSY Analyzer for database analysis, are available from http://pacsy.nmrfam.wisc.eduhttp://pacsy.nmrfam.wisc.edu.

  18. PACSY, a relational database management system for protein structure and chemical shift analysis

    Science.gov (United States)

    Lee, Woonghee; Yu, Wookyung; Kim, Suhkmann; Chang, Iksoo

    2012-01-01

    PACSY (Protein structure And Chemical Shift NMR spectroscopY) is a relational database management system that integrates information from the Protein Data Bank, the Biological Magnetic Resonance Data Bank, and the Structural Classification of Proteins database. PACSY provides three-dimensional coordinates and chemical shifts of atoms along with derived information such as torsion angles, solvent accessible surface areas, and hydrophobicity scales. PACSY consists of six relational table types linked to one another for coherence by key identification numbers. Database queries are enabled by advanced search functions supported by an RDBMS server such as MySQL or PostgreSQL. PACSY enables users to search for combinations of information from different database sources in support of their research. Two software packages, PACSY Maker for database creation and PACSY Analyzer for database analysis, are available from http://pacsy.nmrfam.wisc.edu. PMID:22903636

  19. PACSY, a relational database management system for protein structure and chemical shift analysis

    International Nuclear Information System (INIS)

    Lee, Woonghee; Yu, Wookyung; Kim, Suhkmann; Chang, Iksoo; Lee, Weontae; Markley, John L.

    2012-01-01

    PACSY (Protein structure And Chemical Shift NMR spectroscopY) is a relational database management system that integrates information from the Protein Data Bank, the Biological Magnetic Resonance Data Bank, and the Structural Classification of Proteins database. PACSY provides three-dimensional coordinates and chemical shifts of atoms along with derived information such as torsion angles, solvent accessible surface areas, and hydrophobicity scales. PACSY consists of six relational table types linked to one another for coherence by key identification numbers. Database queries are enabled by advanced search functions supported by an RDBMS server such as MySQL or PostgreSQL. PACSY enables users to search for combinations of information from different database sources in support of their research. Two software packages, PACSY Maker for database creation and PACSY Analyzer for database analysis, are available from http://pacsy.nmrfam.wisc.eduhttp://pacsy.nmrfam.wisc.edu.

  20. CellMiner: a relational database and query tool for the NCI-60 cancer cell lines

    Directory of Open Access Journals (Sweden)

    Reinhold William C

    2009-06-01

    Full Text Available Abstract Background Advances in the high-throughput omic technologies have made it possible to profile cells in a large number of ways at the DNA, RNA, protein, chromosomal, functional, and pharmacological levels. A persistent problem is that some classes of molecular data are labeled with gene identifiers, others with transcript or protein identifiers, and still others with chromosomal locations. What has lagged behind is the ability to integrate the resulting data to uncover complex relationships and patterns. Those issues are reflected in full form by molecular profile data on the panel of 60 diverse human cancer cell lines (the NCI-60 used since 1990 by the U.S. National Cancer Institute to screen compounds for anticancer activity. To our knowledge, CellMiner is the first online database resource for integration of the diverse molecular types of NCI-60 and related meta data. Description CellMiner enables scientists to perform advanced querying of molecular information on NCI-60 (and additional types through a single web interface. CellMiner is a freely available tool that organizes and stores raw and normalized data that represent multiple types of molecular characterizations at the DNA, RNA, protein, and pharmacological levels. Annotations for each project, along with associated metadata on the samples and datasets, are stored in a MySQL database and linked to the molecular profile data. Data can be queried and downloaded along with comprehensive information on experimental and analytic methods for each data set. A Data Intersection tool allows selection of a list of genes (proteins in common between two or more data sets and outputs the data for those genes (proteins in the respective sets. In addition to its role as an integrative resource for the NCI-60, the CellMiner package also serves as a shell for incorporation of molecular profile data on other cell or tissue sample types. Conclusion CellMiner is a relational database tool for

  1. Covariant Evolutionary Event Analysis for Base Interaction Prediction Using a Relational Database Management System for RNA.

    Science.gov (United States)

    Xu, Weijia; Ozer, Stuart; Gutell, Robin R

    2009-01-01

    With an increasingly large amount of sequences properly aligned, comparative sequence analysis can accurately identify not only common structures formed by standard base pairing but also new types of structural elements and constraints. However, traditional methods are too computationally expensive to perform well on large scale alignment and less effective with the sequences from diversified phylogenetic classifications. We propose a new approach that utilizes coevolutional rates among pairs of nucleotide positions using phylogenetic and evolutionary relationships of the organisms of aligned sequences. With a novel data schema to manage relevant information within a relational database, our method, implemented with a Microsoft SQL Server 2005, showed 90% sensitivity in identifying base pair interactions among 16S ribosomal RNA sequences from Bacteria, at a scale 40 times bigger and 50% better sensitivity than a previous study. The results also indicated covariation signals for a few sets of cross-strand base stacking pairs in secondary structure helices, and other subtle constraints in the RNA structure.

  2. Subsurface interpretation based on geophysical data set using geothermal database system `GEOBASE`. 2; Chinetsu database system `GEOBASE` wo riyoshita Kakkonda chinetsu chiiki no chika kozo kaiseki. 2

    Energy Technology Data Exchange (ETDEWEB)

    Osato, K; Sato, T; Miura, Y; Yamane, K [GERD Geothermal Energy Research and Development Co. Ltd., Tokyo (Japan); Doi, N [Japan Metals and Chemicals Co. Ltd., Tokyo (Japan); Uchida, T [New Energy and Industrial Technology Development Organization, Tokyo, (Japan)

    1997-05-27

    Five cross sections were applied as a result of MT method investigations in addition to the results of conventional analyses at the Kakkonda geothermal area; three-dimensional resistivity distribution was made into a database by using the Kriging method which makes a matching with anisotropy of seismic center distribution in micro-earthquakes; and the database was compared with the data derived from surveys on the pilot survey well WD-1a and the side-truck well WD-1b thereof. As a result, it was found that the well WD 1b which encountered a water loss zone had the water loss zone exist in a region with relatively lower resistivity than in the well WD-1a which did not encounter a water loss zone. The region in which the water loss zone was encountered existed in a very steep slope region going from the high resistivity region in the west side toward the low resistivity region in the east side. This fact suggests a possibility that fractures have developed in this region with sharp slope in the resistivity in this area. Adding three-dimensional complementary function to the GEOBASE database by using a simple Kriging allowed the direction of anisotropy in spatial data to be freely and quickly decided. It was learned that this capability exhibits strong power in a mapping work in structures where such anisotropy as a geothermal zone is highly dominant. 5 refs., 8 figs., 2 tabs.

  3. [Establishment of a comprehensive database for laryngeal cancer related genes and the miRNAs].

    Science.gov (United States)

    Li, Mengjiao; E, Qimin; Liu, Jialin; Huang, Tingting; Liang, Chuanyu

    2015-09-01

    By collecting and analyzing the laryngeal cancer related genes and the miRNAs, to build a comprehensive laryngeal cancer-related gene database, which differs from the current biological information database with complex and clumsy structure and focuses on the theme of gene and miRNA, and it could make the research and teaching more convenient and efficient. Based on the B/S architecture, using Apache as a Web server, MySQL as coding language of database design and PHP as coding language of web design, a comprehensive database for laryngeal cancer-related genes was established, providing with the gene tables, protein tables, miRNA tables and clinical information tables of the patients with laryngeal cancer. The established database containsed 207 laryngeal cancer related genes, 243 proteins, 26 miRNAs, and their particular information such as mutations, methylations, diversified expressions, and the empirical references of laryngeal cancer relevant molecules. The database could be accessed and operated via the Internet, by which browsing and retrieval of the information were performed. The database were maintained and updated regularly. The database for laryngeal cancer related genes is resource-integrated and user-friendly, providing a genetic information query tool for the study of laryngeal cancer.

  4. Relational Database for the Geology of the Northern Rocky Mountains - Idaho, Montana, and Washington

    Science.gov (United States)

    Causey, J. Douglas; Zientek, Michael L.; Bookstrom, Arthur A.; Frost, Thomas P.; Evans, Karl V.; Wilson, Anna B.; Van Gosen, Bradley S.; Boleneus, David E.; Pitts, Rebecca A.

    2008-01-01

    A relational database was created to prepare and organize geologic map-unit and lithologic descriptions for input into a spatial database for the geology of the northern Rocky Mountains, a compilation of forty-three geologic maps for parts of Idaho, Montana, and Washington in U.S. Geological Survey Open File Report 2005-1235. Not all of the information was transferred to and incorporated in the spatial database due to physical file limitations. This report releases that part of the relational database that was completed for that earlier product. In addition to descriptive geologic information for the northern Rocky Mountains region, the relational database contains a substantial bibliography of geologic literature for the area. The relational database nrgeo.mdb (linked below) is available in Microsoft Access version 2000, a proprietary database program. The relational database contains data tables and other tables used to define terms, relationships between the data tables, and hierarchical relationships in the data; forms used to enter data; and queries used to extract data.

  5. Alternatives to relational databases in precision medicine: Comparison of NoSQL approaches for big data storage using supercomputers

    Science.gov (United States)

    Velazquez, Enrique Israel

    Improvements in medical and genomic technologies have dramatically increased the production of electronic data over the last decade. As a result, data management is rapidly becoming a major determinant, and urgent challenge, for the development of Precision Medicine. Although successful data management is achievable using Relational Database Management Systems (RDBMS), exponential data growth is a significant contributor to failure scenarios. Growing amounts of data can also be observed in other sectors, such as economics and business, which, together with the previous facts, suggests that alternate database approaches (NoSQL) may soon be required for efficient storage and management of big databases. However, this hypothesis has been difficult to test in the Precision Medicine field since alternate database architectures are complex to assess and means to integrate heterogeneous electronic health records (EHR) with dynamic genomic data are not easily available. In this dissertation, we present a novel set of experiments for identifying NoSQL database approaches that enable effective data storage and management in Precision Medicine using patients' clinical and genomic information from the cancer genome atlas (TCGA). The first experiment draws on performance and scalability from biologically meaningful queries with differing complexity and database sizes. The second experiment measures performance and scalability in database updates without schema changes. The third experiment assesses performance and scalability in database updates with schema modifications due dynamic data. We have identified two NoSQL approach, based on Cassandra and Redis, which seems to be the ideal database management systems for our precision medicine queries in terms of performance and scalability. We present NoSQL approaches and show how they can be used to manage clinical and genomic big data. Our research is relevant to the public health since we are focusing on one of the main

  6. A relational database for personnel radiation exposure management

    International Nuclear Information System (INIS)

    David, W.; Miller, P.D.

    1993-01-01

    In-house utility personnel developed a relational data base for personnel radiation exposure management computer system during a 2 1/2 year period. The (PREM) Personnel Radiation Exposure Management System was designed to meet current Nuclear Regulatory Commission (NRC) requirements related to radiological access control, Radiation Work Permits (RWP) management, automated personnel dosimetry reporting, ALARA planning and repetitive job history dose archiving. The system has been operational for the past 18 months which includes a full refueling outage at Clinton Power Station. The Radiation Protection Department designed PREM to establish a software platform for implementing future revisions to 10CFR20 in 1993. Workers acceptance of the system has been excellent. Regulatory officials have given the system high marks as a radiological tool because of the system's ability to track the entire job from start to finish

  7. NODC Standard Product: NOAA Marine environmental buoy database Webdisc (7 disc set) (NCEI Accession 0090141)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This CD-ROM set contains the historic archive of meteorological and oceanographic data collected by moored buoys and C-MAN stations operated by the NOAA National...

  8. Application of the International Union of Radioecologists soil-to-plant database to Canadian settings.

    Energy Technology Data Exchange (ETDEWEB)

    Sheppard, S C [Atomic Energy of Canada Ltd., Pinawa, MB (Canada). Whiteshell Labs.

    1995-12-01

    The International Union of Radioecologists (IUR) has compiled a very large database of soil-to-plant transfer factors. These factors are ratios of the radionuclide concentrations in dry plants divided by the corresponding concentrations in dry soil to a specified depth or thickness. In this report the factors are called CR values, for concentration ratio. The CR values are empirical and are considered element-specific. The IUR database has a lot of data for Cs, Sr, Co, Pu and Np, and contains records for Am, Ce, Cm, I, La, Mn, Ni, Pb, Po, Ra, Ru, Sb, Tc, Th, U and Zn. Where there was a large amount of data, interpolation for ranges of soil conditions was possible. The tables presented here summarize the data in a way that should be immediately useful to modellers. Values are averaged for a number of crop types and species. Correction factors are developed to facilitate interpolation among soil conditions. The data tables in this report do not substitute for site-specific measurements, but they will provide data where measurement is impossible and give a background to check more recent data. (author) 4 refs ., 48 tabs.

  9. The Use of a Relational Database in Qualitative Research on Educational Computing.

    Science.gov (United States)

    Winer, Laura R.; Carriere, Mario

    1990-01-01

    Discusses the use of a relational database as a data management and analysis tool for nonexperimental qualitative research, and describes the use of the Reflex Plus database in the Vitrine 2001 project in Quebec to study computer-based learning environments. Information systems are also discussed, and the use of a conceptual model is explained.…

  10. A Parallel Relational Database Management System Approach to Relevance Feedback in Information Retrieval.

    Science.gov (United States)

    Lundquist, Carol; Frieder, Ophir; Holmes, David O.; Grossman, David

    1999-01-01

    Describes a scalable, parallel, relational database-drive information retrieval engine. To support portability across a wide range of execution environments, all algorithms adhere to the SQL-92 standard. By incorporating relevance feedback algorithms, accuracy is enhanced over prior database-driven information retrieval efforts. Presents…

  11. Keeping Track of Our Treasures: Managing Historical Data with Relational Database Software.

    Science.gov (United States)

    Gutmann, Myron P.; And Others

    1989-01-01

    Describes the way a relational database management system manages a large historical data collection project. Shows that such databases are practical to construct. States that the programing tasks involved are not for beginners, but the rewards of having data organized are worthwhile. (GG)

  12. NESSY, a relational PC database for nuclear structure and decay data

    International Nuclear Information System (INIS)

    Boboshin, I.N.; Varlamov, V.V.; Trukhanov, S.K.

    1994-11-01

    The universal relational database NESSY (New ENSDF Search SYstem) based on the international ENSDF system (Evaluated Nuclear Structure Data File) is described. NESSY, which was developed for IBM compatible PC, provides high efficiency processing of ENSDF information for searches and retrievals of nuclear physics data. The principle of the database development and examples of applications are presented. (author)

  13. The relational clinical database: a possible solution to the star wars in registry systems.

    Science.gov (United States)

    Michels, D K; Zamieroski, M

    1990-12-01

    In summary, having data from other service areas available in a relational clinical database could resolve many of the problems existing in today's registry systems. Uniting sophisticated information systems into a centralized database system could definitely be a corporate asset in managing the bottom line.

  14. Set optimization and applications the state of the art : from set relations to set-valued risk measures

    CERN Document Server

    Heyde, Frank; Löhne, Andreas; Rudloff, Birgit; Schrage, Carola

    2015-01-01

    This volume presents five surveys with extensive bibliographies and six original contributions on set optimization and its applications in mathematical finance and game theory. The topics range from more conventional approaches that look for minimal/maximal elements with respect to vector orders or set relations, to the new complete-lattice approach that comprises a coherent solution concept for set optimization problems, along with existence results, duality theorems, optimality conditions, variational inequalities and theoretical foundations for algorithms. Modern approaches to scalarization methods can be found as well as a fundamental contribution to conditional analysis. The theory is tailor-made for financial applications, in particular risk evaluation and [super-]hedging for market models with transaction costs, but it also provides a refreshing new perspective on vector optimization. There is no comparable volume on the market, making the book an invaluable resource for researchers working in vector o...

  15. ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes

    Energy Technology Data Exchange (ETDEWEB)

    Novichkov, Pavel S.; Ratnere, Igor; Wolf, Yuri I.; Koonin, Eugene V.; Dubchak, Inna

    2009-07-23

    The database of Alignable Tight Genomic Clusters (ATGCs) consists of closely related genomes of archaea and bacteria, and is a resource for research into prokaryotic microevolution. Construction of a data set with appropriate characteristics is a major hurdle for this type of studies. With the current rate of genome sequencing, it is difficult to follow the progress of the field and to determine which of the available genome sets meet the requirements of a given research project, in particular, with respect to the minimum and maximum levels of similarity between the included genomes. Additionally, extraction of specific content, such as genomic alignments or families of orthologs, from a selected set of genomes is a complicated and time-consuming process. The database addresses these problems by providing an intuitive and efficient web interface to browse precomputed ATGCs, select appropriate ones and access ATGC-derived data such as multiple alignments of orthologous proteins, matrices of pairwise intergenomic distances based on genome-wide analysis of synonymous and nonsynonymous substitution rates and others. The ATGC database will be regularly updated following new releases of the NCBI RefSeq. The database is hosted by the Genomics Division at Lawrence Berkeley National laboratory and is publicly available at http://atgc.lbl.gov.

  16. YAdumper: extracting and translating large information volumes from relational databases to structured flat files.

    Science.gov (United States)

    Fernández, José M; Valencia, Alfonso

    2004-10-12

    Downloading the information stored in relational databases into XML and other flat formats is a common task in bioinformatics. This periodical dumping of information requires considerable CPU time, disk and memory resources. YAdumper has been developed as a purpose-specific tool to deal with the integral structured information download of relational databases. YAdumper is a Java application that organizes database extraction following an XML template based on an external Document Type Declaration. Compared with other non-native alternatives, YAdumper substantially reduces memory requirements and considerably improves writing performance.

  17. Comparative performance measures of relational and object-oriented databases using High Energy Physics data

    International Nuclear Information System (INIS)

    Marstaller, J.

    1993-12-01

    The major experiments at the SSC are expected to produce up to 1 Petabyte of data per year. The use of database techniques can significantly reduce the time it takes to access data. The goal of this project was to test which underlying data model, the relational or the object-oriented, would be better suited for archival and accessing high energy data. We describe the relational and the object-oriented data model and their implementation in commercial database management systems. To determine scalability we tested both implementations for 10-MB and 100-MB databases using storage and timing criteria

  18. An Improved Algorithm for Generating Database Transactions from Relational Algebra Specifications

    Directory of Open Access Journals (Sweden)

    Daniel J. Dougherty

    2010-03-01

    Full Text Available Alloy is a lightweight modeling formalism based on relational algebra. In prior work with Fisler, Giannakopoulos, Krishnamurthi, and Yoo, we have presented a tool, Alchemy, that compiles Alloy specifications into implementations that execute against persistent databases. The foundation of Alchemy is an algorithm for rewriting relational algebra formulas into code for database transactions. In this paper we report on recent progress in improving the robustness and efficiency of this transformation.

  19. A Novel Approach: Chemical Relational Databases, and the Role of the ISSCAN Database on Assessing Chemical Carcinogenity

    Science.gov (United States)

    Mutagenicity and carcinogenicity databases are crucial resources for toxicologists and regulators involved in chemicals risk assessment. Until recently, existing public toxicity databases have been constructed primarily as "look-up-tables" of existing data, and most often did no...

  20. Search extension transforms Wiki into a relational system: a case for flavonoid metabolite database.

    Science.gov (United States)

    Arita, Masanori; Suwa, Kazuhiro

    2008-09-17

    In computer science, database systems are based on the relational model founded by Edgar Codd in 1970. On the other hand, in the area of biology the word 'database' often refers to loosely formatted, very large text files. Although such bio-databases may describe conflicts or ambiguities (e.g. a protein pair do and do not interact, or unknown parameters) in a positive sense, the flexibility of the data format sacrifices a systematic query mechanism equivalent to the widely used SQL. To overcome this disadvantage, we propose embeddable string-search commands on a Wiki-based system and designed a half-formatted database. As proof of principle, a database of flavonoid with 6902 molecular structures from over 1687 plant species was implemented on MediaWiki, the background system of Wikipedia. Registered users can describe any information in an arbitrary format. Structured part is subject to text-string searches to realize relational operations. The system was written in PHP language as the extension of MediaWiki. All modifications are open-source and publicly available. This scheme benefits from both the free-formatted Wiki style and the concise and structured relational-database style. MediaWiki supports multi-user environments for document management, and the cost for database maintenance is alleviated.

  1. NETMARK: A Schema-less Extension for Relational Databases for Managing Semi-structured Data Dynamically

    Science.gov (United States)

    Maluf, David A.; Tran, Peter B.

    2003-01-01

    Object-Relational database management system is an integrated hybrid cooperative approach to combine the best practices of both the relational model utilizing SQL queries and the object-oriented, semantic paradigm for supporting complex data creation. In this paper, a highly scalable, information on demand database framework, called NETMARK, is introduced. NETMARK takes advantages of the Oracle 8i object-relational database using physical addresses data types for very efficient keyword search of records spanning across both context and content. NETMARK was originally developed in early 2000 as a research and development prototype to solve the vast amounts of unstructured and semi-structured documents existing within NASA enterprises. Today, NETMARK is a flexible, high-throughput open database framework for managing, storing, and searching unstructured or semi-structured arbitrary hierarchal models, such as XML and HTML.

  2. The TJ-II Relational Database Access Library: A User's Guide

    International Nuclear Information System (INIS)

    Sanchez, E.; Portas, A. B.; Vega, J.

    2003-01-01

    A relational database has been developed to store data representing physical values from TJ-II discharges. This new database complements the existing TJ-EI raw data database. This database resides in a host computer running Windows 2000 Server operating system and it is managed by SQL Server. A function library has been developed that permits remote access to these data from user programs running in computers connected to TJ-II local area networks via remote procedure cali. In this document a general description of the database and its organization are provided. Also given are a detailed description of the functions included in the library and examples of how to use these functions in computer programs written in the FORTRAN and C languages. (Author) 8 refs

  3. A national drug related problems database: evaluation of use in practice, reliability and reproducibility

    DEFF Research Database (Denmark)

    Kjeldsen, Lene Juel; Birkholm, Trine; Fischer, Hanne Lis

    2014-01-01

    Background A drug related problems database (DRP-database) was developed on request by clinical pharmacists. The information from the DRP-database has only been used locally e.g. to identify focus areas and to communicate identified DRPs to the hospital wards. Hence the quality of the data...... by clinical pharmacists with categorization performed by the project group. Reproducibility was explored by re-categorization of a sample of existing records in the DRP-database by two project group members individually. Main outcome measures Observed proportion of agreement and Fleiss' kappa as measures...... reliability study of 34 clinical pharmacists showed high inter-rater reliability with the project group (Fleiss' kappa = 0.79 with 95 % CI (0.70; 0.88)), and the reproducibility study also documented high inter-rater reliability of a sample of 379 records from the DRP-database re-categorized by two project...

  4. Development of a relational database to capture and merge clinical history with the quantitative results of radionuclide renography.

    Science.gov (United States)

    Folks, Russell D; Savir-Baruch, Bital; Garcia, Ernest V; Verdes, Liudmila; Taylor, Andrew T

    2012-12-01

    Our objective was to design and implement a clinical history database capable of linking to our database of quantitative results from (99m)Tc-mercaptoacetyltriglycine (MAG3) renal scans and export a data summary for physicians or our software decision support system. For database development, we used a commercial program. Additional software was developed in Interactive Data Language. MAG3 studies were processed using an in-house enhancement of a commercial program. The relational database has 3 parts: a list of all renal scans (the RENAL database), a set of patients with quantitative processing results (the Q2 database), and a subset of patients from Q2 containing clinical data manually transcribed from the hospital information system (the CLINICAL database). To test interobserver variability, a second physician transcriber reviewed 50 randomly selected patients in the hospital information system and tabulated 2 clinical data items: hydronephrosis and presence of a current stent. The CLINICAL database was developed in stages and contains 342 fields comprising demographic information, clinical history, and findings from up to 11 radiologic procedures. A scripted algorithm is used to reliably match records present in both Q2 and CLINICAL. An Interactive Data Language program then combines data from the 2 databases into an XML (extensible markup language) file for use by the decision support system. A text file is constructed and saved for review by physicians. RENAL contains 2,222 records, Q2 contains 456 records, and CLINICAL contains 152 records. The interobserver variability testing found a 95% match between the 2 observers for presence or absence of ureteral stent (κ = 0.52), a 75% match for hydronephrosis based on narrative summaries of hospitalizations and clinical visits (κ = 0.41), and a 92% match for hydronephrosis based on the imaging report (κ = 0.84). We have developed a relational database system to integrate the quantitative results of MAG3 image

  5. Domain fusion analysis by applying relational algebra to protein sequence and domain databases.

    Science.gov (United States)

    Truong, Kevin; Ikura, Mitsuhiko

    2003-05-06

    Domain fusion analysis is a useful method to predict functionally linked proteins that may be involved in direct protein-protein interactions or in the same metabolic or signaling pathway. As separate domain databases like BLOCKS, PROSITE, Pfam, SMART, PRINTS-S, ProDom, TIGRFAMs, and amalgamated domain databases like InterPro continue to grow in size and quality, a computational method to perform domain fusion analysis that leverages on these efforts will become increasingly powerful. This paper proposes a computational method employing relational algebra to find domain fusions in protein sequence databases. The feasibility of this method was illustrated on the SWISS-PROT+TrEMBL sequence database using domain predictions from the Pfam HMM (hidden Markov model) database. We identified 235 and 189 putative functionally linked protein partners in H. sapiens and S. cerevisiae, respectively. From scientific literature, we were able to confirm many of these functional linkages, while the remainder offer testable experimental hypothesis. Results can be viewed at http://calcium.uhnres.utoronto.ca/pi. As the analysis can be computed quickly on any relational database that supports standard SQL (structured query language), it can be dynamically updated along with the sequence and domain databases, thereby improving the quality of predictions over time.

  6. An interactive database for setting conservation priorities for western neotropical migrants

    Science.gov (United States)

    Michael F. Carter; Keith Barker

    1993-01-01

    We develop and explain a species ranking system for the states and physiographic regions of the Neotropical Migratory Bird Conservation Program's West Working Group. The ranking criteria attempt to measure characteristics of species which make them vulnerable to extirpation, as well as assess the relative importance of different geographic and/or political areas...

  7. Critical incidents related to cardiac arrests reported to the Danish Patient Safety Database

    DEFF Research Database (Denmark)

    Andersen, Peter Oluf; Maaløe, Rikke; Andersen, Henning Boje

    2010-01-01

    Background Critical incident reports can identify areas for improvement in resuscitation practice. The Danish Patient Safety Database is a mandatory reporting system and receives critical incident reports submitted by hospital personnel. The aim of this study is to identify, analyse and categorize...... critical incidents related to cardiac arrests reported to the Danish Patient Safety Database. Methods The search terms “cardiac arrest” and “resuscitation” were used to identify reports in the Danish Patient Safety Database. Identified critical incidents were then classified into categories. Results One...

  8. A role for relational databases in high energy physics software systems

    International Nuclear Information System (INIS)

    Lauer, R.; Slaughter, A.J.; Wolin, E.

    1987-01-01

    This paper presents the design and initial implementation of software which uses a relational database management system for storage and retrieval of real and Monte Carlo generated events from a charm and beauty spectrometer with a vertex detector. The purpose of the software is to graphically display and interactively manipulate the events, fit tracks and vertices and calculate physics quantities. The INGRES database forms the core of the system, while the DI3000 graphics package is used to plot the events. The paper introduces relational database concepts and their applicability to high energy physics data. It also evaluates the environment provided by INGRES, particularly its usefulness in code development and its Fortran interface. Specifics of the database design we have chosen are detailed as well. (orig.)

  9. Rapid storage and retrieval of genomic intervals from a relational database system using nested containment lists.

    Science.gov (United States)

    Wiley, Laura K; Sivley, R Michael; Bush, William S

    2013-01-01

    Efficient storage and retrieval of genomic annotations based on range intervals is necessary, given the amount of data produced by next-generation sequencing studies. The indexing strategies of relational database systems (such as MySQL) greatly inhibit their use in genomic annotation tasks. This has led to the development of stand-alone applications that are dependent on flat-file libraries. In this work, we introduce MyNCList, an implementation of the NCList data structure within a MySQL database. MyNCList enables the storage, update and rapid retrieval of genomic annotations from the convenience of a relational database system. Range-based annotations of 1 million variants are retrieved in under a minute, making this approach feasible for whole-genome annotation tasks. Database URL: https://github.com/bushlab/mynclist.

  10. A7DB: a relational database for mutational, physiological and pharmacological data related to the α7 nicotinic acetylcholine receptor

    Directory of Open Access Journals (Sweden)

    Sansom Mark SP

    2005-01-01

    Full Text Available Abstract Background Nicotinic acetylcholine receptors (nAChRs are pentameric proteins that are important drug targets for a variety of diseases including Alzheimer's, schizophrenia and various forms of epilepsy. One of the most intensively studied nAChR subunits in recent years has been α7. This subunit can form functional homomeric pentamers (α75, which can make interpretation of physiological and structural data much simpler. The growing amount of structural, pharmacological and physiological data for these receptors indicates the need for a dedicated and accurate database to provide a means to access this information in a coherent manner. Description A7DB http://www.lgics.org/a7db/ is a new relational database of manually curated experimental physiological data associated with the α7 nAChR. It aims to store as much of the pharmacology, physiology and structural data pertaining to the α7 nAChR. The data is accessed via web interface that allows a user to search the data in multiple ways: 1 a simple text query 2 an incremental query builder 3 an interactive query builder and 4 a file-based uploadable query. It currently holds more than 460 separately reported experiments on over 85 mutations. Conclusions A7DB will be a useful tool to molecular biologists and bioinformaticians not only working on the α7 receptor family of proteins but also in the more general context of nicotinic receptor modelling. Furthermore it sets a precedent for expansion with the inclusion of all nicotinic receptor families and eventually all cys-loop receptor families.

  11. [Preparation of the database and the homepage on chemical accidents relating to health hazard].

    Science.gov (United States)

    Yamamoto, M; Morita, M; Kaminuma, T

    1998-01-01

    We collected the data on accidents due to chemicals occurred in Japan, and prepared the database. We also set up the World Wide Web homepage containing the explanation on accidents due to chemicals and the retrieval page for the database. We designed the retrieval page so that users can search the data from keywords such as chemicals (e.g. chlorine gas, hydrogen sulfide, pesticides), places (e.g. home, factory, vehicles, tank), causes (e.g. reaction, leakage, exhaust gas) and others (e.g. cleaning, painting, transportation).

  12. Dynamic tables: an architecture for managing evolving, heterogeneous biomedical data in relational database management systems.

    Science.gov (United States)

    Corwin, John; Silberschatz, Avi; Miller, Perry L; Marenco, Luis

    2007-01-01

    Data sparsity and schema evolution issues affecting clinical informatics and bioinformatics communities have led to the adoption of vertical or object-attribute-value-based database schemas to overcome limitations posed when using conventional relational database technology. This paper explores these issues and discusses why biomedical data are difficult to model using conventional relational techniques. The authors propose a solution to these obstacles based on a relational database engine using a sparse, column-store architecture. The authors provide benchmarks comparing the performance of queries and schema-modification operations using three different strategies: (1) the standard conventional relational design; (2) past approaches used by biomedical informatics researchers; and (3) their sparse, column-store architecture. The performance results show that their architecture is a promising technique for storing and processing many types of data that are not handled well by the other two semantic data models.

  13. Use of a Relational Database to Support Clinical Research: Application in a Diabetes Program

    Science.gov (United States)

    Lomatch, Diane; Truax, Terry; Savage, Peter

    1981-01-01

    A database has been established to support conduct of clinical research and monitor delivery of medical care for 1200 diabetic patients as part of the Michigan Diabetes Research and Training Center (MDRTC). Use of an intelligent microcomputer to enter and retrieve the data and use of a relational database management system (DBMS) to store and manage data have provided a flexible, efficient method of achieving both support of small projects and monitoring overall activity of the Diabetes Center Unit (DCU). Simplicity of access to data, efficiency in providing data for unanticipated requests, ease of manipulations of relations, security and “logical data independence” were important factors in choosing a relational DBMS. The ability to interface with an interactive statistical program and a graphics program is a major advantage of this system. Out database currently provides support for the operation and analysis of several ongoing research projects.

  14. UMD-USHbases: a comprehensive set of databases to record and analyse pathogenic mutations and unclassified variants in seven Usher syndrome causing genes.

    Science.gov (United States)

    Baux, David; Faugère, Valérie; Larrieu, Lise; Le Guédard-Méreuze, Sandie; Hamroun, Dalil; Béroud, Christophe; Malcolm, Sue; Claustres, Mireille; Roux, Anne-Françoise

    2008-08-01

    Using the Universal Mutation Database (UMD) software, we have constructed "UMD-USHbases", a set of relational databases of nucleotide variations for seven genes involved in Usher syndrome (MYO7A, CDH23, PCDH15, USH1C, USH1G, USH3A and USH2A). Mutations in the Usher syndrome type I causing genes are also recorded in non-syndromic hearing loss cases and mutations in USH2A in non-syndromic retinitis pigmentosa. Usher syndrome provides a particular challenge for molecular diagnostics because of the clinical and molecular heterogeneity. As many mutations are missense changes, and all the genes also contain apparently non-pathogenic polymorphisms, well-curated databases are crucial for accurate interpretation of pathogenicity. Tools are provided to assess the pathogenicity of mutations, including conservation of amino acids and analysis of splice-sites. Reference amino acid alignments are provided. Apparently non-pathogenic variants in patients with Usher syndrome, at both the nucleotide and amino acid level, are included. The UMD-USHbases currently contain more than 2,830 entries including disease causing mutations, unclassified variants or non-pathogenic polymorphisms identified in over 938 patients. In addition to data collected from 89 publications, 15 novel mutations identified in our laboratory are recorded in MYO7A (6), CDH23 (8), or PCDH15 (1) genes. Information is given on the relative involvement of the seven genes, the number and distribution of variants in each gene. UMD-USHbases give access to a software package that provides specific routines and optimized multicriteria research and sorting tools. These databases should assist clinicians and geneticists seeking information about mutations responsible for Usher syndrome.

  15. Assessment of COPD-related outcomes via a national electronic medical record database.

    Science.gov (United States)

    Asche, Carl; Said, Quayyim; Joish, Vijay; Hall, Charles Oaxaca; Brixner, Diana

    2008-01-01

    The technology and sophistication of healthcare utilization databases have expanded over the last decade to include results of lab tests, vital signs, and other clinical information. This review provides an assessment of the methodological and analytical challenges of conducting chronic obstructive pulmonary disease (COPD) outcomes research in a national electronic medical records (EMR) dataset and its potential application towards the assessment of national health policy issues, as well as a description of the challenges or limitations. An EMR database and its application to measuring outcomes for COPD are described. The ability to measure adherence to the COPD evidence-based practice guidelines, generated by the NIH and HEDIS quality indicators, in this database was examined. Case studies, before and after their publication, were used to assess the adherence to guidelines and gauge the conformity to quality indicators. EMR was the only source of information for pulmonary function tests, but low frequency in ordering by primary care was an issue. The EMR data can be used to explore impact of variation in healthcare provision on clinical outcomes. The EMR database permits access to specific lab data and biometric information. The richness and depth of information on "real world" use of health services for large population-based analytical studies at relatively low cost render such databases an attractive resource for outcomes research. Various sources of information exist to perform outcomes research. It is important to understand the desired endpoints of such research and choose the appropriate database source.

  16. HIV-Related discrimination in European health care settings.

    Science.gov (United States)

    Nöstlinger, Christiana; Rojas Castro, Daniela; Platteau, Tom; Dias, Sonia; Le Gall, Jean

    2014-03-01

    This cross-sectional European study assessed self-reported HIV-related discrimination and its associated factors in health care settings. Socio-demographics, health status, support needs relating to sexual and reproductive health (SRH), and self-reported HIV-related discrimination were measured using an anonymous survey in a sample of 1549 people living with HIV from 14 countries. Thirty-two per cent of the participants had experienced HIV-related discrimination during the previous 3 years; almost half of them felt discriminated against by health care providers. For this type of discrimination, logistic regression analysis revealed significant associations with not being a migrant (OR: 2.0; IC 1.0-3.7; psex practices (OR: 1.8; IC 1.0-3.2; pgender had a protective effect (OR: 0.2; IC 0.0-0.9; pdiscrimination. Improving health care providers' communication skills, and fostering openness about SRH topics in HIV care could contribute to destigmatization of PLHIV.

  17. Evolution of the use of relational and NoSQL databases in the ATLAS experiment

    CERN Document Server

    Barberis, Dario; The ATLAS collaboration

    2015-01-01

    The ATLAS experiment used for many years a large database infrastructure based on Oracle to store several different types of non-event data: time-dependent detector configuration and conditions data, calibrations and alignments, configurations of Grid sites, catalogues for data management tools, job records for distributed workload management tools, run and event metadata. The rapid development of “NoSQL” databases (structured storage services) in the last five years allowed an extended and complementary usage of traditional relational databases and new structured storage tools in order to improve the performance of existing applications and to extend their functionalities using the possibilities offered by the modern storage systems. The trend is towards using the best tool for each kind of data, separating for example the intrinsically relational metadata from payload storage, and records that are frequently updated and benefit from transactions from archived information. Access to all components has to...

  18. Evolution of the use of relational and NoSQL databases in the ATLAS experiment

    CERN Document Server

    AUTHOR|(INSPIRE)INSPIRE-00064378; The ATLAS collaboration

    2016-01-01

    The ATLAS experiment used for many years a large database infrastructure based on Oracle to store several different types of non-event data: time-dependent detector configuration and conditions data, calibrations and alignments, configurations of Grid sites, catalogues for data management tools, job records for distributed workload management tools, run and event metadata. The rapid development of “NoSQL” databases (structured storage services) in the last five years allowed an extended and complementary usage of traditional relational databases and new structured storage tools in order to improve the performance of existing applications and to extend their functionalities using the possibilities offered by the modern storage systems. The trend is towards using the best tool for each kind of data, separating for example the intrinsically relational metadata from payload storage, and records that are frequently updated and benefit from transactions from archived information. Access to all components has to...

  19. Historical return on investment and improved quality resulting from development and mining of a hospital laboratory relational database.

    Science.gov (United States)

    Brimhall, Bradley B; Hall, Timothy E; Walczak, Steven

    2006-01-01

    A hospital laboratory relational database, developed over eight years, has demonstrated significant cost savings and a substantial financial return on investment (ROI). In addition, the database has been used to measurably improve laboratory operations and the quality of patient care.

  20. Evolution of the use of relational and NoSQL databases in the ATLAS experiment

    Science.gov (United States)

    Barberis, D.

    2016-09-01

    The ATLAS experiment used for many years a large database infrastructure based on Oracle to store several different types of non-event data: time-dependent detector configuration and conditions data, calibrations and alignments, configurations of Grid sites, catalogues for data management tools, job records for distributed workload management tools, run and event metadata. The rapid development of "NoSQL" databases (structured storage services) in the last five years allowed an extended and complementary usage of traditional relational databases and new structured storage tools in order to improve the performance of existing applications and to extend their functionalities using the possibilities offered by the modern storage systems. The trend is towards using the best tool for each kind of data, separating for example the intrinsically relational metadata from payload storage, and records that are frequently updated and benefit from transactions from archived information. Access to all components has to be orchestrated by specialised services that run on front-end machines and shield the user from the complexity of data storage infrastructure. This paper describes this technology evolution in the ATLAS database infrastructure and presents a few examples of large database applications that benefit from it.

  1. PSSRdb: a relational database of polymorphic simple sequence repeats extracted from prokaryotic genomes.

    Science.gov (United States)

    Kumar, Pankaj; Chaitanya, Pasumarthy S; Nagarajaram, Hampapathalu A

    2011-01-01

    PSSRdb (Polymorphic Simple Sequence Repeats database) (http://www.cdfd.org.in/PSSRdb/) is a relational database of polymorphic simple sequence repeats (PSSRs) extracted from 85 different species of prokaryotes. Simple sequence repeats (SSRs) are the tandem repeats of nucleotide motifs of the sizes 1-6 bp and are highly polymorphic. SSR mutations in and around coding regions affect transcription and translation of genes. Such changes underpin phase variations and antigenic variations seen in some bacteria. Although SSR-mediated phase variation and antigenic variations have been well-studied in some bacteria there seems a lot of other species of prokaryotes yet to be investigated for SSR mediated adaptive and other evolutionary advantages. As a part of our on-going studies on SSR polymorphism in prokaryotes we compared the genome sequences of various strains and isolates available for 85 different species of prokaryotes and extracted a number of SSRs showing length variations and created a relational database called PSSRdb. This database gives useful information such as location of PSSRs in genomes, length variation across genomes, the regions harboring PSSRs, etc. The information provided in this database is very useful for further research and analysis of SSRs in prokaryotes.

  2. Organizing, exploring, and analyzing antibody sequence data: the case for relational-database managers.

    Science.gov (United States)

    Owens, John

    2009-01-01

    Technological advances in the acquisition of DNA and protein sequence information and the resulting onrush of data can quickly overwhelm the scientist unprepared for the volume of information that must be evaluated and carefully dissected to discover its significance. Few laboratories have the luxury of dedicated personnel to organize, analyze, or consistently record a mix of arriving sequence data. A methodology based on a modern relational-database manager is presented that is both a natural storage vessel for antibody sequence information and a conduit for organizing and exploring sequence data and accompanying annotation text. The expertise necessary to implement such a plan is equal to that required by electronic word processors or spreadsheet applications. Antibody sequence projects maintained as independent databases are selectively unified by the relational-database manager into larger database families that contribute to local analyses, reports, interactive HTML pages, or exported to facilities dedicated to sophisticated sequence analysis techniques. Database files are transposable among current versions of Microsoft, Macintosh, and UNIX operating systems.

  3. Keyword Search in Databases

    CERN Document Server

    Yu, Jeffrey Xu; Chang, Lijun

    2009-01-01

    It has become highly desirable to provide users with flexible ways to query/search information over databases as simple as keyword search like Google search. This book surveys the recent developments on keyword search over databases, and focuses on finding structural information among objects in a database using a set of keywords. Such structural information to be returned can be either trees or subgraphs representing how the objects, that contain the required keywords, are interconnected in a relational database or in an XML database. The structural keyword search is completely different from

  4. The Effect of Relational Database Technology on Administrative Computing at Carnegie Mellon University.

    Science.gov (United States)

    Golden, Cynthia; Eisenberger, Dorit

    1990-01-01

    Carnegie Mellon University's decision to standardize its administrative system development efforts on relational database technology and structured query language is discussed and its impact is examined in one of its larger, more widely used applications, the university information system. Advantages, new responsibilities, and challenges of the…

  5. Dynamic taxonomies applied to a web-based relational database for geo-hydrological risk mitigation

    Science.gov (United States)

    Sacco, G. M.; Nigrelli, G.; Bosio, A.; Chiarle, M.; Luino, F.

    2012-02-01

    In its 40 years of activity, the Research Institute for Geo-hydrological Protection of the Italian National Research Council has amassed a vast and varied collection of historical documentation on landslides, muddy-debris flows, and floods in northern Italy from 1600 to the present. Since 2008, the archive resources have been maintained through a relational database management system. The database is used for routine study and research purposes as well as for providing support during geo-hydrological emergencies, when data need to be quickly and accurately retrieved. Retrieval speed and accuracy are the main objectives of an implementation based on a dynamic taxonomies model. Dynamic taxonomies are a general knowledge management model for configuring complex, heterogeneous information bases that support exploratory searching. At each stage of the process, the user can explore or browse the database in a guided yet unconstrained way by selecting the alternatives suggested for further refining the search. Dynamic taxonomies have been successfully applied to such diverse and apparently unrelated domains as e-commerce and medical diagnosis. Here, we describe the application of dynamic taxonomies to our database and compare it to traditional relational database query methods. The dynamic taxonomy interface, essentially a point-and-click interface, is considerably faster and less error-prone than traditional form-based query interfaces that require the user to remember and type in the "right" search keywords. Finally, dynamic taxonomy users have confirmed that one of the principal benefits of this approach is the confidence of having considered all the relevant information. Dynamic taxonomies and relational databases work in synergy to provide fast and precise searching: one of the most important factors in timely response to emergencies.

  6. Examining database persistence of ISO/EN 13606 standardized electronic health record extracts: relational vs. NoSQL approaches.

    Science.gov (United States)

    Sánchez-de-Madariaga, Ricardo; Muñoz, Adolfo; Lozano-Rubí, Raimundo; Serrano-Balazote, Pablo; Castro, Antonio L; Moreno, Oscar; Pascual, Mario

    2017-08-18

    The objective of this research is to compare the relational and non-relational (NoSQL) database systems approaches in order to store, recover, query and persist standardized medical information in the form of ISO/EN 13606 normalized Electronic Health Record XML extracts, both in isolation and concurrently. NoSQL database systems have recently attracted much attention, but few studies in the literature address their direct comparison with relational databases when applied to build the persistence layer of a standardized medical information system. One relational and two NoSQL databases (one document-based and one native XML database) of three different sizes have been created in order to evaluate and compare the response times (algorithmic complexity) of six different complexity growing queries, which have been performed on them. Similar appropriate results available in the literature have also been considered. Relational and non-relational NoSQL database systems show almost linear algorithmic complexity query execution. However, they show very different linear slopes, the former being much steeper than the two latter. Document-based NoSQL databases perform better in concurrency than in isolation, and also better than relational databases in concurrency. Non-relational NoSQL databases seem to be more appropriate than standard relational SQL databases when database size is extremely high (secondary use, research applications). Document-based NoSQL databases perform in general better than native XML NoSQL databases. EHR extracts visualization and edition are also document-based tasks more appropriate to NoSQL database systems. However, the appropriate database solution much depends on each particular situation and specific problem.

  7. Blood pressure variability in relation to outcome in the International Database of Ambulatory blood pressure in relation to Cardiovascular Outcome

    DEFF Research Database (Denmark)

    Stolarz-Skrzypek, Katarzyna; Thijs, Lutgarde; Richart, Tom

    2010-01-01

    Ambulatory blood pressure (BP) monitoring provides information not only on the BP level but also on the diurnal changes in BP. In the present review, we summarized the main findings of the International Database on Ambulatory BP in relation to Cardiovascular Outcome (IDACO) with regard to risk...

  8. An Investigation of the Fine Spatial Structure of Meteor Streams Using the Relational Database ``Meteor''

    Science.gov (United States)

    Karpov, A. V.; Yumagulov, E. Z.

    2003-05-01

    We have restored and ordered the archive of meteor observations carried out with a meteor radar complex ``KGU-M5'' since 1986. A relational database has been formed under the control of the Database Management System (DBMS) Oracle 8. We also improved and tested a statistical method for studying the fine spatial structure of meteor streams with allowance for the specific features of application of the DBMS. Statistical analysis of the results of observations made it possible to obtain information about the substance distribution in the Quadrantid, Geminid, and Perseid meteor streams.

  9. Development of a relational database for nuclear material (NM) accounting in RC and I Group

    International Nuclear Information System (INIS)

    Yadav, M.B.; Ramakumar, K.L.; Venugopal, V.

    2011-01-01

    A relational database for the nuclear material accounting in RC and I Group has been developed with MYSQL for Back-End and JAVA for Front-End development. Back-End has been developed to avoid any data redundancy, to provide random access of the data and to retrieve the required information from database easily. JAVA Applet and Java Swing components of JAVA programming have been used in the Front-End development. Front-End has been developed to provide data security, data integrity, to generate inventory status report at the end of accounting period, and also to have a quick look of some required information on computer screen. The database has been tested for the data of three quarters of the year 2009. It has been implemented from 1st January, 2010 for the accounting of nuclear material in RC and I Group. (author)

  10. Development of a relational database for nuclear material (NM) accounting in RC and I Group

    Energy Technology Data Exchange (ETDEWEB)

    Yadav, M B; Ramakumar, K L; Venugopal, V [Radioanalytical Chemistry Division, Radiochemistry and Isotope Group, Bhabha Atomic Research Centre, Mumbai (India)

    2011-07-01

    A relational database for the nuclear material accounting in RC and I Group has been developed with MYSQL for Back-End and JAVA for Front-End development. Back-End has been developed to avoid any data redundancy, to provide random access of the data and to retrieve the required information from database easily. JAVA Applet and Java Swing components of JAVA programming have been used in the Front-End development. Front-End has been developed to provide data security, data integrity, to generate inventory status report at the end of accounting period, and also to have a quick look of some required information on computer screen. The database has been tested for the data of three quarters of the year 2009. It has been implemented from 1st January, 2010 for the accounting of nuclear material in RC and I Group. (author)

  11. A protein relational database and protein family knowledge bases to facilitate structure-based design analyses.

    Science.gov (United States)

    Mobilio, Dominick; Walker, Gary; Brooijmans, Natasja; Nilakantan, Ramaswamy; Denny, R Aldrin; Dejoannis, Jason; Feyfant, Eric; Kowticwar, Rupesh K; Mankala, Jyoti; Palli, Satish; Punyamantula, Sairam; Tatipally, Maneesh; John, Reji K; Humblet, Christine

    2010-08-01

    The Protein Data Bank is the most comprehensive source of experimental macromolecular structures. It can, however, be difficult at times to locate relevant structures with the Protein Data Bank search interface. This is particularly true when searching for complexes containing specific interactions between protein and ligand atoms. Moreover, searching within a family of proteins can be tedious. For example, one cannot search for some conserved residue as residue numbers vary across structures. We describe herein three databases, Protein Relational Database, Kinase Knowledge Base, and Matrix Metalloproteinase Knowledge Base, containing protein structures from the Protein Data Bank. In Protein Relational Database, atom-atom distances between protein and ligand have been precalculated allowing for millisecond retrieval based on atom identity and distance constraints. Ring centroids, centroid-centroid and centroid-atom distances and angles have also been included permitting queries for pi-stacking interactions and other structural motifs involving rings. Other geometric features can be searched through the inclusion of residue pair and triplet distances. In Kinase Knowledge Base and Matrix Metalloproteinase Knowledge Base, the catalytic domains have been aligned into common residue numbering schemes. Thus, by searching across Protein Relational Database and Kinase Knowledge Base, one can easily retrieve structures wherein, for example, a ligand of interest is making contact with the gatekeeper residue.

  12. An Object-Relational Ifc Storage Model Based on Oracle Database

    Science.gov (United States)

    Li, Hang; Liu, Hua; Liu, Yong; Wang, Yuan

    2016-06-01

    With the building models are getting increasingly complicated, the levels of collaboration across professionals attract more attention in the architecture, engineering and construction (AEC) industry. In order to adapt the change, buildingSMART developed Industry Foundation Classes (IFC) to facilitate the interoperability between software platforms. However, IFC data are currently shared in the form of text file, which is defective. In this paper, considering the object-based inheritance hierarchy of IFC and the storage features of different database management systems (DBMS), we propose a novel object-relational storage model that uses Oracle database to store IFC data. Firstly, establish the mapping rules between data types in IFC specification and Oracle database. Secondly, design the IFC database according to the relationships among IFC entities. Thirdly, parse the IFC file and extract IFC data. And lastly, store IFC data into corresponding tables in IFC database. In experiment, three different building models are selected to demonstrate the effectiveness of our storage model. The comparison of experimental statistics proves that IFC data are lossless during data exchange.

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

    Science.gov (United States)

    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.

  14. An automated database case definition for serious bleeding related to oral anticoagulant use.

    Science.gov (United States)

    Cunningham, Andrew; Stein, C Michael; Chung, Cecilia P; Daugherty, James R; Smalley, Walter E; Ray, Wayne A

    2011-06-01

    Bleeding complications are a serious adverse effect of medications that prevent abnormal blood clotting. To facilitate epidemiologic investigations of bleeding complications, we developed and validated an automated database case definition for bleeding-related hospitalizations. The case definition utilized information from an in-progress retrospective cohort study of warfarin-related bleeding in Tennessee Medicaid enrollees 30 years of age or older. It identified inpatient stays during the study period of January 1990 to December 2005 with diagnoses and/or procedures that indicated a current episode of bleeding. The definition was validated by medical record review for a sample of 236 hospitalizations. We reviewed 186 hospitalizations that had medical records with sufficient information for adjudication. Of these, 165 (89%, 95%CI: 83-92%) were clinically confirmed bleeding-related hospitalizations. An additional 19 hospitalizations (10%, 7-15%) were adjudicated as possibly bleeding-related. Of the 165 clinically confirmed bleeding-related hospitalizations, the automated database and clinical definitions had concordant anatomical sites (gastrointestinal, cerebral, genitourinary, other) for 163 (99%, 96-100%). For those hospitalizations with sufficient information to distinguish between upper/lower gastrointestinal bleeding, the concordance was 89% (76-96%) for upper gastrointestinal sites and 91% (77-97%) for lower gastrointestinal sites. A case definition for bleeding-related hospitalizations suitable for automated databases had a positive predictive value of between 89% and 99% and could distinguish specific bleeding sites. Copyright © 2011 John Wiley & Sons, Ltd.

  15. Relative Impact of Print and Database Products on Database Producer Expenses and Income--A Follow-Up.

    Science.gov (United States)

    Williams, Martha E.

    1982-01-01

    Provides update to 13-year analysis of finances of major database producer noting actions taken to improve finances (decrease expenses, increase efficiency, develop new products, market strategies and services, change pricing scheme, omit print products, increase prices) and consequences of actions (revenue increase, connect hour increase). Five…

  16. PDBj Mine: design and implementation of relational database interface for Protein Data Bank Japan.

    Science.gov (United States)

    Kinjo, Akira R; Yamashita, Reiko; Nakamura, Haruki

    2010-08-25

    This article is a tutorial for PDBj Mine, a new database and its interface for Protein Data Bank Japan (PDBj). In PDBj Mine, data are loaded from files in the PDBMLplus format (an extension of PDBML, PDB's canonical XML format, enriched with annotations), which are then served for the user of PDBj via the worldwide web (WWW). We describe the basic design of the relational database (RDB) and web interfaces of PDBj Mine. The contents of PDBMLplus files are first broken into XPath entities, and these paths and data are indexed in the way that reflects the hierarchical structure of the XML files. The data for each XPath type are saved into the corresponding relational table that is named as the XPath itself. The generation of table definitions from the PDBMLplus XML schema is fully automated. For efficient search, frequently queried terms are compiled into a brief summary table. Casual users can perform simple keyword search, and 'Advanced Search' which can specify various conditions on the entries. More experienced users can query the database using SQL statements which can be constructed in a uniform manner. Thus, PDBj Mine achieves a combination of the flexibility of XML documents and the robustness of the RDB. Database URL: http://www.pdbj.org/

  17. Global search tool for the Advanced Photon Source Integrated Relational Model of Installed Systems (IRMIS) database

    International Nuclear Information System (INIS)

    Quock, D.E.R.; Cianciarulo, M.B.

    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, the 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.

  18. Accessing the public MIMIC-II intensive care relational database for clinical research.

    Science.gov (United States)

    Scott, Daniel J; Lee, Joon; Silva, Ikaro; Park, Shinhyuk; Moody, George B; Celi, Leo A; Mark, Roger G

    2013-01-10

    The Multiparameter Intelligent Monitoring in Intensive Care II (MIMIC-II) database is a free, public resource for intensive care research. The database was officially released in 2006, and has attracted a growing number of researchers in academia and industry. We present the two major software tools that facilitate accessing the relational database: the web-based QueryBuilder and a downloadable virtual machine (VM) image. QueryBuilder and the MIMIC-II VM have been developed successfully and are freely available to MIMIC-II users. Simple example SQL queries and the resulting data are presented. Clinical studies pertaining to acute kidney injury and prediction of fluid requirements in the intensive care unit are shown as typical examples of research performed with MIMIC-II. In addition, MIMIC-II has also provided data for annual PhysioNet/Computing in Cardiology Challenges, including the 2012 Challenge "Predicting mortality of ICU Patients". QueryBuilder is a web-based tool that provides easy access to MIMIC-II. For more computationally intensive queries, one can locally install a complete copy of MIMIC-II in a VM. Both publicly available tools provide the MIMIC-II research community with convenient querying interfaces and complement the value of the MIMIC-II relational database.

  19. Monitoring of services with non-relational databases and map-reduce framework

    International Nuclear Information System (INIS)

    Babik, M; Souto, F

    2012-01-01

    Service Availability Monitoring (SAM) is a well-established monitoring framework that performs regular measurements of the core site services and reports the corresponding availability and reliability of the Worldwide LHC Computing Grid (WLCG) infrastructure. One of the existing extensions of SAM is Site Wide Area Testing (SWAT), which gathers monitoring information from the worker nodes via instrumented jobs. This generates quite a lot of monitoring data to process, as there are several data points for every job and several million jobs are executed every day. The recent uptake of non-relational databases opens a new paradigm in the large-scale storage and distributed processing of systems with heavy read-write workloads. For SAM this brings new possibilities to improve its model, from performing aggregation of measurements to storing raw data and subsequent re-processing. Both SAM and SWAT are currently tuned to run at top performance, reaching some of the limits in storage and processing power of their existing Oracle relational database. We investigated the usability and performance of non-relational storage together with its distributed data processing capabilities. For this, several popular systems have been compared. In this contribution we describe our investigation of the existing non-relational databases suited for monitoring systems covering Cassandra, HBase and MongoDB. Further, we present our experiences in data modeling and prototyping map-reduce algorithms focusing on the extension of the already existing availability and reliability computations. Finally, possible future directions in this area are discussed, analyzing the current deficiencies of the existing Grid monitoring systems and proposing solutions to leverage the benefits of the non-relational databases to get more scalable and flexible frameworks.

  20. Scientific Meetings Database: A New Tool for CTBT-Related International Cooperation

    Energy Technology Data Exchange (ETDEWEB)

    Knapik, Jerzy F.; Girven, Mary L.

    1999-08-20

    The mission of international cooperation is defined in the Comprehensive Nuclear-Test-Ban Treaty (CTBT). Ways and means of implementation were the subject of discussion during the International Cooperation Workshop held in Vienna in November 1998, and during the Regional Workshop for CTBTO International Cooperation held in Cairo, Egypt in June 1999. In particular, a database of ''Scientific and Technical Meetings Directly or Indirectly Related to CTBT Verification-Related Technologies'' was developed by the CTBTO PrepCom/PTS/International Cooperation section and integrated into the organization's various web sites in cooperation with the U.S. Department of Energy CTBT Research and Development Program. This database, the structure and use of which is described in this paper/presentation is meant to assist the CTBT-related scientific community in identifying worldwide expertise in the CTBT verification-related technologies and should help experts, particularly those of less technologically advanced States Signatories, to strengthen contacts and to pursue international cooperation under the Tredy regime. Specific opportunities for international cooperation, in particular those provided by active participation in the use and further development of this database, are presented in this paper and/or presentation.

  1. Database Administrator

    Science.gov (United States)

    Moore, Pam

    2010-01-01

    The Internet and electronic commerce (e-commerce) generate lots of data. Data must be stored, organized, and managed. Database administrators, or DBAs, work with database software to find ways to do this. They identify user needs, set up computer databases, and test systems. They ensure that systems perform as they should and add people to the…

  2. [Relational database for urinary stone ambulatory consultation. Assessment of initial outcomes].

    Science.gov (United States)

    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.

  3. Relating price strategies and price-setting practices

    NARCIS (Netherlands)

    Ingenbleek, P.T.M.; Lans, van der I.A.

    2013-01-01

    Purpose - This article addresses the relationship between price strategies and price-setting practices. The first derive from a normative tradition in the pricing literature and the latter from a descriptive tradition. Price strategies are visible in the market, whereas price-setting practices are

  4. ZeBase: an open-source relational database for zebrafish laboratories.

    Science.gov (United States)

    Hensley, Monica R; Hassenplug, Eric; McPhail, Rodney; Leung, Yuk Fai

    2012-03-01

    Abstract ZeBase is an open-source relational database for zebrafish inventory. It is designed for the recording of genetic, breeding, and survival information of fish lines maintained in a single- or multi-laboratory environment. Users can easily access ZeBase through standard web-browsers anywhere on a network. Convenient search and reporting functions are available to facilitate routine inventory work; such functions can also be automated by simple scripting. Optional barcode generation and scanning are also built-in for easy access to the information related to any fish. Further information of the database and an example implementation can be found at http://zebase.bio.purdue.edu.

  5. Monitoring outcomes with relational databases: does it improve quality of care?

    Science.gov (United States)

    Clemmer, Terry P

    2004-12-01

    There are 3 key ingredients in improving quality of medial care: 1) using a scientific process of improvement, 2) executing the process at the lowest possible level in the organization, and 3) measuring the results of any change reliably. Relational databases when used within these guidelines are of great value in these efforts if they contain reliable information that is pertinent to the project and used in a scientific process of quality improvement by a front line team. Unfortunately, the data are frequently unreliable and/or not pertinent to the local process and is used by persons at very high levels in the organization without a scientific process and without reliable measurement of the outcome. Under these circumstances the effectiveness of relational databases in improving care is marginal at best, frequently wasteful and has the potential to be harmful. This article explores examples of these concepts.

  6. TRENDS: A flight test relational database user's guide and reference manual

    Science.gov (United States)

    Bondi, M. J.; Bjorkman, W. S.; Cross, J. L.

    1994-01-01

    This report is designed to be a user's guide and reference manual for users intending to access rotocraft test data via TRENDS, the relational database system which was developed as a tool for the aeronautical engineer with no programming background. This report has been written to assist novice and experienced TRENDS users. TRENDS is a complete system for retrieving, searching, and analyzing both numerical and narrative data, and for displaying time history and statistical data in graphical and numerical formats. This manual provides a 'guided tour' and a 'user's guide' for the new and intermediate-skilled users. Examples for the use of each menu item within TRENDS is provided in the Menu Reference section of the manual, including full coverage for TIMEHIST, one of the key tools. This manual is written around the XV-15 Tilt Rotor database, but does include an appendix on the UH-60 Blackhawk database. This user's guide and reference manual establishes a referrable source for the research community and augments NASA TM-101025, TRENDS: The Aeronautical Post-Test, Database Management System, Jan. 1990, written by the same authors.

  7. Engineering the object-relation database model in O-Raid

    Science.gov (United States)

    Dewan, Prasun; Vikram, Ashish; Bhargava, Bharat

    1989-01-01

    Raid is a distributed database system based on the relational model. O-raid is an extension of the Raid system and will support complex data objects. The design of O-Raid is evolutionary and retains all features of relational data base systems and those of a general purpose object-oriented programming language. O-Raid has several novel properties. Objects, classes, and inheritance are supported together with a predicate-base relational query language. O-Raid objects are compatible with C++ objects and may be read and manipulated by a C++ program without any 'impedance mismatch'. Relations and columns within relations may themselves be treated as objects with associated variables and methods. Relations may contain heterogeneous objects, that is, objects of more than one class in a certain column, which can individually evolve by being reclassified. Special facilities are provided to reduce the data search in a relation containing complex objects.

  8. Implementation of the Multidimensional Modeling Concepts into Object-Relational Databases

    Directory of Open Access Journals (Sweden)

    2007-01-01

    Full Text Available A key to survival in the business world is being able to analyze, plan and react to changing business conditions as fast as possible. With multidimensional models the managers can explore information at different levels of granularity and the decision makers at all levels can quickly respond to changes in the business climate-the ultimate goal of business intelligence. This paper focuses on the implementation of the multidimensional concepts into object-relational databases.

  9. Development of a Comprehensive Blast-Related Auditory Injury Database (BRAID)

    Science.gov (United States)

    2016-05-01

    servicemembers included in the Blast-Related Auditory Injury Database. * Training injuries, accidents, and other noncombat injuries. †3,452 injuries...medications, exposures to ototoxic chemicals, recreational noise exposure, and other forms of temporary and persistent threshold shift. Combat marines...AC, Vecchiotti M, Kujawa SG, Lee DJ, Quesnel AM. Otologic outcomes after blast injury: The Boston Marathon experience. Otol Neurotol. 2014; 35(10

  10. OCL2Trigger: Deriving active mechanisms for relational databases using Model-Driven Architecture

    OpenAIRE

    Al-Jumaily, Harith T.; Cuadra, Dolores; Martínez, Paloma

    2008-01-01

    16 pages, 10 figures.-- Issue title: "Best papers from the 2007 Australian Software Engineering Conference (ASWEC 2007), Melbourne, Australia, April 10-13, 2007, Australian Software Engineering Conference 2007". Transforming integrity constraints into active rules or triggers for verifying database consistency produces a serious and complex problem related to real time behaviour that must be considered for any implementation. Our main contribution to this work is to provide a complete appr...

  11. Adding Hierarchical Objects to Relational Database General-Purpose XML-Based Information Managements

    Science.gov (United States)

    Lin, Shu-Chun; Knight, Chris; La, Tracy; Maluf, David; Bell, David; Tran, Khai Peter; Gawdiak, Yuri

    2006-01-01

    NETMARK is a flexible, high-throughput software system for managing, storing, and rapid searching of unstructured and semi-structured documents. NETMARK transforms such documents from their original highly complex, constantly changing, heterogeneous data formats into well-structured, common data formats in using Hypertext Markup Language (HTML) and/or Extensible Markup Language (XML). The software implements an object-relational database system that combines the best practices of the relational model utilizing Structured Query Language (SQL) with those of the object-oriented, semantic database model for creating complex data. In particular, NETMARK takes advantage of the Oracle 8i object-relational database model using physical-address data types for very efficient keyword searches of records across both context and content. NETMARK also supports multiple international standards such as WEBDAV for drag-and-drop file management and SOAP for integrated information management using Web services. The document-organization and -searching capabilities afforded by NETMARK are likely to make this software attractive for use in disciplines as diverse as science, auditing, and law enforcement.

  12. Data model and relational database design for the New England Water-Use Data System (NEWUDS)

    Science.gov (United States)

    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.

  13. Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database.

    Science.gov (United States)

    Carver, Tim; Berriman, Matthew; Tivey, Adrian; Patel, Chinmay; Böhme, Ulrike; Barrell, Barclay G; Parkhill, Julian; Rajandream, Marie-Adèle

    2008-12-01

    Artemis and Artemis Comparison Tool (ACT) have become mainstream tools for viewing and annotating sequence data, particularly for microbial genomes. Since its first release, Artemis has been continuously developed and supported with additional functionality for editing and analysing sequences based on feedback from an active user community of laboratory biologists and professional annotators. Nevertheless, its utility has been somewhat restricted by its limitation to reading and writing from flat files. Therefore, a new version of Artemis has been developed, which reads from and writes to a relational database schema, and allows users to annotate more complex, often large and fragmented, genome sequences. Artemis and ACT have now been extended to read and write directly to the Generic Model Organism Database (GMOD, http://www.gmod.org) Chado relational database schema. In addition, a Gene Builder tool has been developed to provide structured forms and tables to edit coordinates of gene models and edit functional annotation, based on standard ontologies, controlled vocabularies and free text. Artemis and ACT are freely available (under a GPL licence) for download (for MacOSX, UNIX and Windows) at the Wellcome Trust Sanger Institute web sites: http://www.sanger.ac.uk/Software/Artemis/ http://www.sanger.ac.uk/Software/ACT/

  14. A Space-Economic Representation of Transitive Closures in Relational Databases

    Directory of Open Access Journals (Sweden)

    Yangjun Chen

    2006-10-01

    Full Text Available A composite object represented as a directed graph (digraph for short is an important data structure that requires efficient support in CAD/CAM, CASE, office systems, software management, web databases, and document databases. It is cumbersome to handle such objects in relational database systems when they involve ancestor-descendant relationships (or say, recursive relationships. In this paper, we present a new encoding method to label a digraph, which reduces the footprints of all previous strategies. This method is based on a tree labeling method and the concept of branchings that are used in graph theory for finding the shortest connection networks. A branching is a subgraph of a given digraph that is in fact a forest, but covers all the nodes of the graph. On the one hand, the proposed encoding scheme achieves the smallest space requirements among all previously published strategies for recognizing recursive relationships. On the other hand, it leads to a new algorithm for computing transitive closures for DAGs (directed acyclic graph in O(eþb time and O(nþb space, where n represents the number of the nodes of a DAG, e the numbers of the edges, and b the DAG's breadth. In addition, this method can be extended to cyclic digraphs and is especially suitable for a relational environment.

  15. Relational database hybrid model, of high performance and storage capacity for nuclear engineering applications

    International Nuclear Information System (INIS)

    Gomes Neto, Jose

    2008-01-01

    The objective of this work is to present the relational database, named FALCAO. It was created and implemented to support the storage of the monitored variables in the IEA-R1 research reactor, located in the Instituto de Pesquisas Energeticas e Nucleares, IPEN/CNEN-SP. The data logical model and its direct influence in the integrity of the provided information are carefully considered. The concepts and steps of normalization and de normalization including the entities and relations involved in the logical model are presented. It is also presented the effects of the model rules in the acquisition, loading and availability of the final information, under the performance concept since the acquisition process loads and provides lots of information in small intervals of time. The SACD application, through its functionalities, presents the information stored in the FALCAO database in a practical and optimized form. The implementation of the FALCAO database occurred successfully and its existence leads to a considerably favorable situation. It is now essential to the routine of the researchers involved, not only due to the substantial improvement of the process but also to the reliability associated to it. (author)

  16. Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database

    Science.gov (United States)

    Carver, Tim; Berriman, Matthew; Tivey, Adrian; Patel, Chinmay; Böhme, Ulrike; Barrell, Barclay G.; Parkhill, Julian; Rajandream, Marie-Adèle

    2008-01-01

    Motivation: Artemis and Artemis Comparison Tool (ACT) have become mainstream tools for viewing and annotating sequence data, particularly for microbial genomes. Since its first release, Artemis has been continuously developed and supported with additional functionality for editing and analysing sequences based on feedback from an active user community of laboratory biologists and professional annotators. Nevertheless, its utility has been somewhat restricted by its limitation to reading and writing from flat files. Therefore, a new version of Artemis has been developed, which reads from and writes to a relational database schema, and allows users to annotate more complex, often large and fragmented, genome sequences. Results: Artemis and ACT have now been extended to read and write directly to the Generic Model Organism Database (GMOD, http://www.gmod.org) Chado relational database schema. In addition, a Gene Builder tool has been developed to provide structured forms and tables to edit coordinates of gene models and edit functional annotation, based on standard ontologies, controlled vocabularies and free text. Availability: Artemis and ACT are freely available (under a GPL licence) for download (for MacOSX, UNIX and Windows) at the Wellcome Trust Sanger Institute web sites: http://www.sanger.ac.uk/Software/Artemis/ http://www.sanger.ac.uk/Software/ACT/ Contact: artemis@sanger.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online. PMID:18845581

  17. DB90: A Fortran Callable Relational Database Routine for Scientific and Engineering Computer Programs

    Science.gov (United States)

    Wrenn, Gregory A.

    2005-01-01

    This report describes a database routine called DB90 which is intended for use with scientific and engineering computer programs. The software is written in the Fortran 90/95 programming language standard with file input and output routines written in the C programming language. These routines should be completely portable to any computing platform and operating system that has Fortran 90/95 and C compilers. DB90 allows a program to supply relation names and up to 5 integer key values to uniquely identify each record of each relation. This permits the user to select records or retrieve data in any desired order.

  18. Redundancy control in pathway databases (ReCiPa): an application for improving gene-set enrichment analysis in Omics studies and "Big data" biology.

    Science.gov (United States)

    Vivar, Juan C; Pemu, Priscilla; McPherson, Ruth; Ghosh, Sujoy

    2013-08-01

    Abstract Unparalleled technological advances have fueled an explosive growth in the scope and scale of biological data and have propelled life sciences into the realm of "Big Data" that cannot be managed or analyzed by conventional approaches. Big Data in the life sciences are driven primarily via a diverse collection of 'omics'-based technologies, including genomics, proteomics, metabolomics, transcriptomics, metagenomics, and lipidomics. Gene-set enrichment analysis is a powerful approach for interrogating large 'omics' datasets, leading to the identification of biological mechanisms associated with observed outcomes. While several factors influence the results from such analysis, the impact from the contents of pathway databases is often under-appreciated. Pathway databases often contain variously named pathways that overlap with one another to varying degrees. Ignoring such redundancies during pathway analysis can lead to the designation of several pathways as being significant due to high content-similarity, rather than truly independent biological mechanisms. Statistically, such dependencies also result in correlated p values and overdispersion, leading to biased results. We investigated the level of redundancies in multiple pathway databases and observed large discrepancies in the nature and extent of pathway overlap. This prompted us to develop the application, ReCiPa (Redundancy Control in Pathway Databases), to control redundancies in pathway databases based on user-defined thresholds. Analysis of genomic and genetic datasets, using ReCiPa-generated overlap-controlled versions of KEGG and Reactome pathways, led to a reduction in redundancy among the top-scoring gene-sets and allowed for the inclusion of additional gene-sets representing possibly novel biological mechanisms. Using obesity as an example, bioinformatic analysis further demonstrated that gene-sets identified from overlap-controlled pathway databases show stronger evidence of prior association

  19. CORAL Server and CORAL Server Proxy: Scalable Access to Relational Databases from CORAL Applications

    International Nuclear Information System (INIS)

    Valassi, A; Kalkhof, A; Bartoldus, R; Salnikov, A; Wache, M

    2011-01-01

    The CORAL software is widely used at CERN by the LHC experiments to access the data they store on relational databases, such as Oracle. Two new components have recently been added to implement a model involving a middle tier 'CORAL server' deployed close to the database and a tree of 'CORAL server proxies', providing data caching and multiplexing, deployed close to the client. A first implementation of the two new components, released in the summer 2009, is now deployed in the ATLAS online system to read the data needed by the High Level Trigger, allowing the configuration of a farm of several thousand processes. This paper reviews the architecture of the software, its development status and its usage in ATLAS.

  20. Conceptual considerations for CBM databases

    Energy Technology Data Exchange (ETDEWEB)

    Akishina, E. P.; Aleksandrov, E. I.; Aleksandrov, I. N.; Filozova, I. A.; Ivanov, V. V.; Zrelov, P. V. [Lab. of Information Technologies, JINR, Dubna (Russian Federation); Friese, V.; Mueller, W. [GSI, Darmstadt (Germany)

    2014-07-01

    We consider a concept of databases for the Cm experiment. For this purpose, an analysis of the databases for large experiments at the LHC at CERN has been performed. Special features of various DBMS utilized in physical experiments, including relational and object-oriented DBMS as the most applicable ones for the tasks of these experiments, were analyzed. A set of databases for the CBM experiment, DBMS for their developments as well as use cases for the considered databases are suggested.

  1. Conceptual considerations for CBM databases

    International Nuclear Information System (INIS)

    Akishina, E.P.; Aleksandrov, E.I.; Aleksandrov, I.N.; Filozova, I.A.; Ivanov, V.V.; Zrelov, P.V.; Friese, V.; Mueller, W.

    2014-01-01

    We consider a concept of databases for the Cm experiment. For this purpose, an analysis of the databases for large experiments at the LHC at CERN has been performed. Special features of various DBMS utilized in physical experiments, including relational and object-oriented DBMS as the most applicable ones for the tasks of these experiments, were analyzed. A set of databases for the CBM experiment, DBMS for their developments as well as use cases for the considered databases are suggested.

  2. Construction of a century solar chromosphere data set for solar activity related research

    Science.gov (United States)

    Lin, Ganghua; Wang, Xiao Fan; Yang, Xiao; Liu, Suo; Zhang, Mei; Wang, Haimin; Liu, Chang; Xu, Yan; Tlatov, Andrey; Demidov, Mihail; Borovik, Aleksandr; Golovko, Aleksey

    2017-06-01

    This article introduces our ongoing project "Construction of a Century Solar Chromosphere Data Set for Solar Activity Related Research". Solar activities are the major sources of space weather that affects human lives. Some of the serious space weather consequences, for instance, include interruption of space communication and navigation, compromising the safety of astronauts and satellites, and damaging power grids. Therefore, the solar activity research has both scientific and social impacts. The major database is built up from digitized and standardized film data obtained by several observatories around the world and covers a time span of more than 100 years. After careful calibration, we will develop feature extraction and data mining tools and provide them together with the comprehensive database for the astronomical community. Our final goal is to address several physical issues: filament behavior in solar cycles, abnormal behavior of solar cycle 24, large-scale solar eruptions, and sympathetic remote brightenings. Significant signs of progress are expected in data mining algorithms and software development, which will benefit the scientific analysis and eventually advance our understanding of solar cycles.

  3. Construction of a century solar chromosphere data set for solar activity related research

    Directory of Open Access Journals (Sweden)

    Ganghua Lin

    2017-06-01

    Full Text Available This article introduces our ongoing project “Construction of a Century Solar Chromosphere Data Set for Solar Activity Related Research”. Solar activities are the major sources of space weather that affects human lives. Some of the serious space weather consequences, for instance, include interruption of space communication and navigation, compromising the safety of astronauts and satellites, and damaging power grids. Therefore, the solar activity research has both scientific and social impacts. The major database is built up from digitized and standardized film data obtained by several observatories around the world and covers a timespan more than 100 years. After careful calibration, we will develop feature extraction and data mining tools and provide them together with the comprehensive database for the astronomical community. Our final goal is to address several physical issues: filament behavior in solar cycles, abnormal behavior of solar cycle 24, large-scale solar eruptions, and sympathetic remote brightenings. Significant progresses are expected in data mining algorithms and software development, which will benefit the scientific analysis and eventually advance our understanding of solar cycles.

  4. Guided Imagery and Music Bibliography and GIM/Related Literature Refworks Database

    DEFF Research Database (Denmark)

    Bonde, Lars Ole

    2010-01-01

    Bibliografi og database over litteratur om den receptive musikterapimetode Guided Imagery and Music......Bibliografi og database over litteratur om den receptive musikterapimetode Guided Imagery and Music...

  5. Creating Relational Spaces: Everyday Spirituality in Early Childhood Settings

    Science.gov (United States)

    Bone, Jane

    2008-01-01

    This research addressed the question of how the spiritual experience of young children might be supported in early childhood educational settings. Qualitative case study research took place in three different contexts: a Montessori casa, a Rudolf Steiner kindergarten and a private preschool. Children aged 2 1/2-6 years, their parents and teachers…

  6. NASA's Global Change Master Directory: Discover and Access Earth Science Data Sets, Related Data Services, and Climate Diagnostics

    Science.gov (United States)

    Aleman, Alicia; Olsen, Lola; Ritz, Scott; Morahan, Michael; Cepero, Laurel; Stevens, Tyler

    2011-01-01

    NASA's Global Change Master Directory provides the scientific community with the ability to discover, access, and use Earth science data, data-related services, and climate diagnostics worldwide. The GCMD offers descriptions of Earth science data sets using the Directory Interchange Format (DIF) metadata standard; Earth science related data services are described using the Service Entry Resource Format (SERF); and climate visualizations are described using the Climate Diagnostic (CD) standard. The DIF, SERF and CD standards each capture data attributes used to determine whether a data set, service, or climate visualization is relevant to a user's needs. Metadata fields include: title, summary, science keywords, service keywords, data center, data set citation, personnel, instrument, platform, quality, related URL, temporal and spatial coverage, data resolution and distribution information. In addition, nine valuable sets of controlled vocabularies have been developed to assist users in normalizing the search for data descriptions. An update to the GCMD's search functionality is planned to further capitalize on the controlled vocabularies during database queries. By implementing a dynamic keyword "tree", users will have the ability to search for data sets by combining keywords in new ways. This will allow users to conduct more relevant and efficient database searches to support the free exchange and re-use of Earth science data. http://gcmd.nasa.gov/

  7. A database of annotated promoters of genes associated with common respiratory and related diseases

    KAUST Repository

    Chowdhary, Rajesh; Tan, Sinlam; Pavesi, Giulio; Jin, Gg; Dong, Difeng; Mathur, Sameer K.; Burkart, Arthur; Narang, Vipin; Glurich, Ingrid E.; Raby, Benjamin A.; Weiss, Scott T.; Limsoon, Wong; Liu, Jun; Bajic, Vladimir B.

    2012-01-01

    Many genes have been implicated in the pathogenesis of common respiratory and related diseases (RRDs), yet the underlying mechanisms are largely unknown. Differential gene expression patterns in diseased and healthy individuals suggest that RRDs affect or are affected by modified transcription regulation programs. It is thus crucial to characterize implicated genes in terms of transcriptional regulation. For this purpose, we conducted a promoter analysis of genes associated with 11 common RRDs including allergic rhinitis, asthma, bronchiectasis, bronchiolitis, bronchitis, chronic obstructive pulmonary disease, cystic fibrosis, emphysema, eczema, psoriasis, and urticaria, many of which are thought to be genetically related. The objective of the present study was to obtain deeper insight into the transcriptional regulation of these disease-associated genes by annotating their promoter regions with transcription factors (TFs) and TF binding sites (TFBSs). We discovered many TFs that are significantly enriched in the target disease groups including associations that have been documented in the literature. We also identified a number of putative TFs/TFBSs that appear to be novel. The results of our analysis are provided in an online database that is freely accessible to researchers at http://www.respiratorygenomics.com. Promoter-associated TFBS information and related genomic features, such as histone modification sites, microsatellites, CpG islands, and SNPs, are graphically summarized in the database. Users can compare and contrast underlying mechanisms of specific RRDs relative to candidate genes, TFs, gene ontology terms, micro-RNAs, and biological pathways for the conduct of metaanalyses. This database represents a novel, useful resource for RRD researchers. Copyright © 2012 by the American Thoracic Society.

  8. A database of annotated promoters of genes associated with common respiratory and related diseases

    KAUST Repository

    Chowdhary, Rajesh

    2012-07-01

    Many genes have been implicated in the pathogenesis of common respiratory and related diseases (RRDs), yet the underlying mechanisms are largely unknown. Differential gene expression patterns in diseased and healthy individuals suggest that RRDs affect or are affected by modified transcription regulation programs. It is thus crucial to characterize implicated genes in terms of transcriptional regulation. For this purpose, we conducted a promoter analysis of genes associated with 11 common RRDs including allergic rhinitis, asthma, bronchiectasis, bronchiolitis, bronchitis, chronic obstructive pulmonary disease, cystic fibrosis, emphysema, eczema, psoriasis, and urticaria, many of which are thought to be genetically related. The objective of the present study was to obtain deeper insight into the transcriptional regulation of these disease-associated genes by annotating their promoter regions with transcription factors (TFs) and TF binding sites (TFBSs). We discovered many TFs that are significantly enriched in the target disease groups including associations that have been documented in the literature. We also identified a number of putative TFs/TFBSs that appear to be novel. The results of our analysis are provided in an online database that is freely accessible to researchers at http://www.respiratorygenomics.com. Promoter-associated TFBS information and related genomic features, such as histone modification sites, microsatellites, CpG islands, and SNPs, are graphically summarized in the database. Users can compare and contrast underlying mechanisms of specific RRDs relative to candidate genes, TFs, gene ontology terms, micro-RNAs, and biological pathways for the conduct of metaanalyses. This database represents a novel, useful resource for RRD researchers. Copyright © 2012 by the American Thoracic Society.

  9. The Basel Face Database: A validated set of photographs reflecting systematic differences in Big Two and Big Five personality dimensions.

    Science.gov (United States)

    Walker, Mirella; Schönborn, Sandro; Greifeneder, Rainer; Vetter, Thomas

    2018-01-01

    Upon a first encounter, individuals spontaneously associate faces with certain personality dimensions. Such first impressions can strongly impact judgments and decisions and may prove highly consequential. Researchers investigating the impact of facial information often rely on (a) real photographs that have been selected to vary on the dimension of interest, (b) morphed photographs, or (c) computer-generated faces (avatars). All three approaches have distinct advantages. Here we present the Basel Face Database, which combines these advantages. In particular, the Basel Face Database consists of real photographs that are subtly, but systematically manipulated to show variations in the perception of the Big Two and the Big Five personality dimensions. To this end, the information specific to each psychological dimension is isolated and modeled in new photographs. Two studies serve as systematic validation of the Basel Face Database. The Basel Face Database opens a new pathway for researchers across psychological disciplines to investigate effects of perceived personality.

  10. Design And Implementation Of Tool For Detecting Anti-Patterns In Relational Database

    Directory of Open Access Journals (Sweden)

    Gaurav Kumar

    2017-07-01

    Full Text Available Anti-patterns are poor solution to design and im-plementation problems. Developers may introduce anti-patterns in their software systems because of time pressure lack of understanding communication and or-skills. Anti-patterns create problems in software maintenance and development. Database anti-patterns lead to complex and time consuming query process-ing and loss of integrity constraints. Detecting anti-patterns could reduce costs efforts and resources. Researchers have proposed approaches to detect anti-patterns in software development. But not much research has been done about database anti-patterns. This report presents two approaches to detect schema design anti-patterns in relational database. Our first approach is based on pattern matchingwe look into potential candidates based on schema patterns. Second approach is a machine learning based approach we generate features of possible anti-patterns and build SVMbased classifier to detect them. Here we look into these four anti-patterns a Multi-valued attribute b Nave tree based c Entity Attribute Value and dPolymorphic Association . We measure precision and recall of each approach and compare the results. SVM-based approach provides more precision and recall with more training dataset.

  11. Developing a virtual reality application for training Nuclear Power Plant operators: Setting up a database containing dose rates in the refuelling plant

    International Nuclear Information System (INIS)

    Rodenas, J.; Zarza, I.; Burgos, M. C.; Felipe, A.; Sanchez-Mayoral, M. L.

    2004-01-01

    Operators in Nuclear Power Plants can receive high doses during refuelling operations. A training programme for simulating refuelling operations will be useful in reducing the doses received by workers as well as minimising operation time. With this goal in mind, a virtual reality application is developed within the framework of the CIPRES project. The application requires doses, both instantaneous and accumulated, to be displayed at all times during operator training. Therefore, it is necessary to set up a database containing dose rates at every point in the refuelling plant. This database is based on radiological protection surveillance data measured in the plant during refuelling operations. Some interpolation routines have been used to estimate doses through the refuelling plant. Different assumptions have been adopted in order to perform the interpolation and obtain consistent data. In this paper, the procedures developed to set up the dose database for the virtual reality application are presented and analysed. (authors)

  12. Subsurface interpretation based on geophysical data set using geothermal database system `GEOBASE`; Chinetsu database system `GEOBASE` wo riyoshita Kakkonda chinetsu chiiki no chika kozo kaiseki

    Energy Technology Data Exchange (ETDEWEB)

    Osato, K; Sato, T; Miura, Y; Yamane, K [Geothermal Energy Research and Development Co. Ltd., Tokyo (Japan); Doi, N [Japan Metals and Chemicals Co. Ltd., Tokyo (Japan); Uchida, T [New Energy and Industrial Technology Development Organization, Tokyo, (Japan)

    1996-05-01

    This paper reports application of a geothermal database system (GEOBASE) to analyzing subsurface structure in the Kakkonda geothermal area. Registered into the GEOBASE to analyze specific resistance structure in this area were depth information (well track and electric logging of existing wells), three-dimensional discretization data (two-dimensional analysis cross section using the MT method and distribution of micro-earthquake epicenters), and two-dimensional discretization data (altitude, and depth to top of the Kakkonda granite). The GEOBASE is capable of three-dimensional interpolation and three-dimensional indication respectively on the three-dimensional discretization data and the depth information table. The paper presents a depth compiling plan drawing for 2000 m below sea level and an SE-NE cross section compiling cross sectional drawing. The paper also indicates that the three-dimensional interpolation function of the GEOBASE renders comparison of spatial data capable of being done freely and quickly, thereby exhibiting power in the comprehensive analysis of this kind. 3 refs., 8 figs., 2 tabs.

  13. Conceptual Model Formalization in a Semantic Interoperability Service Framework: Transforming Relational Database Schemas to OWL.

    Science.gov (United States)

    Bravo, Carlos; Suarez, Carlos; González, Carolina; López, Diego; Blobel, Bernd

    2014-01-01

    Healthcare information is distributed through multiple heterogeneous and autonomous systems. Access to, and sharing of, distributed information sources are a challenging task. To contribute to meeting this challenge, this paper presents a formal, complete and semi-automatic transformation service from Relational Databases to Web Ontology Language. The proposed service makes use of an algorithm that allows to transform several data models of different domains by deploying mainly inheritance rules. The paper emphasizes the relevance of integrating the proposed approach into an ontology-based interoperability service to achieve semantic interoperability.

  14. Usage of the Jess Engine, Rules and Ontology to Query a Relational Database

    Science.gov (United States)

    Bak, Jaroslaw; Jedrzejek, Czeslaw; Falkowski, Maciej

    We present a prototypical implementation of a library tool, the Semantic Data Library (SDL), which integrates the Jess (Java Expert System Shell) engine, rules and ontology to query a relational database. The tool extends functionalities of previous OWL2Jess with SWRL implementations and takes full advantage of the Jess engine, by separating forward and backward reasoning. The optimization of integration of all these technologies is an advancement over previous tools. We discuss the complexity of the query algorithm. As a demonstration of capability of the SDL library, we execute queries using crime ontology which is being developed in the Polish PPBW project.

  15. Intonational meaning in institutional settings: the role of syntagmatic relations

    Science.gov (United States)

    Wichmann, Anne

    2010-12-01

    This paper addresses the power of intonation to convey interpersonal or attitudinal meaning. Speakers have been shown to accommodate to each other in the course of conversation, and this convergence may be perceived as a sign of empathy. Accommodation often involves paradigmatic choices—choosing the same words, gestures, regional accent or melodic pattern, but this paper suggests that affective meaning can also be conveyed syntagmatically through the relationship between prosodic features in successive utterances. The paper also addresses the use of prosody in situations of conflict, particularly in institutional settings. The requirement of the more powerful participant to exercise control may conflict with the expression of empathy. Situations are described where divergent rather than convergent behaviour is more successful both in keeping control and in maintaining rapport.

  16. Report on the database structuring project in fiscal 1996 related to the 'surveys on making databases for energy saving (2)'; 1996 nendo database kochiku jigyo hokokusho. Sho energy database system ka ni kansuru chosa 2

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1998-03-01

    With an objective to support promotion of energy conservation in such countries as Japan, China, Indonesia, the Philippines, Thailand, Malaysia, Taiwan and Korea, primary information on energy conservation in each country was collected, and the database was structured. This paper summarizes the achievements in fiscal 1996. Based on the survey result on the database project having been progressed to date, and on various data having been collected, this fiscal year has discussed structuring the database for distribution and proliferation of the database. In the discussion, requirements for the functions to be possessed by the database, items of data to be recorded in the database, and processing of the recorded data were put into order referring to propositions on the database circumstances. Demonstrations for the database of a proliferation version were performed in the Philippines, Indonesia and China. Three hundred CDs for distribution in each country were prepared. Adjustments and confirmation on operation of the supplied computers were carried out, and the operation explaining meetings were held in China and the Philippines. (NEDO)

  17. The IAEA inventory databases related to radioactive material entering the marine environment

    International Nuclear Information System (INIS)

    Rastogi, R.C.; Sjoeblom, K.L.

    1999-01-01

    Contracting Parties to the Convention on the Prevention of Marine Pollution by Dumping of Wastes and other Matter (LC 1972) have requested the IAEA to develop an inventory of radioactive material entering the marine environment from all sources. The rationale for developing and maintaining the inventory is related to its use as an information base with which the impact of radionuclides entering the marine environment from different sources can be assessed and compared. Five anthropogenic sources of radionuclides entering the marine environment can be identified. These sources are: radioactive waste disposal at sea; accidents and losses at sea involving radioactive material; discharge of low level liquid effluents from land-based nuclear facilities; the fallout from nuclear weapons testing; and accidental releases from land-based nuclear facilities. The first two of these sources are most closely related to the objective of the LC 1972 and its request to the IAEA. This paper deals with the Agency's work on developing a database on radioactive material entering the marine environment from these two sources. The database has the acronym RAMEM (RAdioactive Material Entering the Marine Environment). It includes two modules: inventory of radioactive waste disposal at sea and inventory of accidents and losses at sea involving radioactive material

  18. The Politics of Information: Building a Relational Database To Support Decision-Making at a Public University.

    Science.gov (United States)

    Friedman, Debra; Hoffman, Phillip

    2001-01-01

    Describes creation of a relational database at the University of Washington supporting ongoing academic planning at several levels and affecting the culture of decision making. Addresses getting started; sharing the database; questions, worries, and issues; improving access to high-demand courses; the advising function; management of instructional…

  19. Relational Aggression in School Settings: Definition, Development, Strategies, and Implications

    Science.gov (United States)

    Dailey, Alicia L.; Frey, Andy J.; Walker, Hill M.

    2015-01-01

    Relational aggression (RA) is a nonphysical form of aggression whereby the perpetrator's goal is to inflict or threaten damage to relationships, including harm to the target child's social standing or reputation. This form of aggression may result in long-term psychological harm to victims. This article defines RA, summarizes its development, and…

  20. BioMagResBank databases DOCR and FRED containing converted and filtered sets of experimental NMR restraints and coordinates from over 500 protein PDB structures

    Energy Technology Data Exchange (ETDEWEB)

    Doreleijers, Jurgen F. [University of Wisconsin-Madison, BioMagResBank, Department of Biochemistry (United States); Nederveen, Aart J. [Utrecht University, Bijvoet Center for Biomolecular Research (Netherlands); Vranken, Wim [European Bioinformatics Institute, Macromolecular Structure Database group (United Kingdom); Lin Jundong [University of Wisconsin-Madison, BioMagResBank, Department of Biochemistry (United States); Bonvin, Alexandre M.J.J.; Kaptein, Robert [Utrecht University, Bijvoet Center for Biomolecular Research (Netherlands); Markley, John L.; Ulrich, Eldon L. [University of Wisconsin-Madison, BioMagResBank, Department of Biochemistry (United States)], E-mail: elu@bmrb.wisc.edu

    2005-05-15

    We present two new databases of NMR-derived distance and dihedral angle restraints: the Database Of Converted Restraints (DOCR) and the Filtered Restraints Database (FRED). These databases currently correspond to 545 proteins with NMR structures deposited in the Protein Databank (PDB). The criteria for inclusion were that these should be unique, monomeric proteins with author-provided experimental NMR data and coordinates available from the PDB capable of being parsed and prepared in a consistent manner. The Wattos program was used to parse the files, and the CcpNmr FormatConverter program was used to prepare them semi-automatically. New modules, including a new implementation of Aqua in the BioMagResBank (BMRB) software Wattos were used to analyze the sets of distance restraints (DRs) for inconsistencies, redundancies, NOE completeness, classification and violations with respect to the original coordinates. Restraints that could not be associated with a known nomenclature were flagged. The coordinates of hydrogen atoms were recalculated from the positions of heavy atoms to allow for a full restraint analysis. The DOCR database contains restraint and coordinate data that is made consistent with each other and with IUPAC conventions. The FRED database is based on the DOCR data but is filtered for use by test calculation protocols and longitudinal analyses and validations. These two databases are available from websites of the BMRB and the Macromolecular Structure Database (MSD) in various formats: NMR-STAR, CCPN XML, and in formats suitable for direct use in the software packages CNS and CYANA.

  1. BioMagResBank databases DOCR and FRED containing converted and filtered sets of experimental NMR restraints and coordinates from over 500 protein PDB structures

    International Nuclear Information System (INIS)

    Doreleijers, Jurgen F.; Nederveen, Aart J.; Vranken, Wim; Lin Jundong; Bonvin, Alexandre M.J.J.; Kaptein, Robert; Markley, John L.; Ulrich, Eldon L.

    2005-01-01

    We present two new databases of NMR-derived distance and dihedral angle restraints: the Database Of Converted Restraints (DOCR) and the Filtered Restraints Database (FRED). These databases currently correspond to 545 proteins with NMR structures deposited in the Protein Databank (PDB). The criteria for inclusion were that these should be unique, monomeric proteins with author-provided experimental NMR data and coordinates available from the PDB capable of being parsed and prepared in a consistent manner. The Wattos program was used to parse the files, and the CcpNmr FormatConverter program was used to prepare them semi-automatically. New modules, including a new implementation of Aqua in the BioMagResBank (BMRB) software Wattos were used to analyze the sets of distance restraints (DRs) for inconsistencies, redundancies, NOE completeness, classification and violations with respect to the original coordinates. Restraints that could not be associated with a known nomenclature were flagged. The coordinates of hydrogen atoms were recalculated from the positions of heavy atoms to allow for a full restraint analysis. The DOCR database contains restraint and coordinate data that is made consistent with each other and with IUPAC conventions. The FRED database is based on the DOCR data but is filtered for use by test calculation protocols and longitudinal analyses and validations. These two databases are available from websites of the BMRB and the Macromolecular Structure Database (MSD) in various formats: NMR-STAR, CCPN XML, and in formats suitable for direct use in the software packages CNS and CYANA

  2. Perfect independent sets with respect to infinitely many relations

    Czech Academy of Sciences Publication Activity Database

    Doležal, Martin; Kubiś, Wieslaw

    2016-01-01

    Roč. 55, č. 7 (2016), s. 847-856 ISSN 0933-5846 R&D Projects: GA ČR(CZ) GA14-07880S Institutional support: RVO:67985840 Keywords : perfect clique * free subgroup * open relation Subject RIV: BA - General Mathematics Impact factor: 0.394, year: 2016 http://link.springer.com/article/10.1007%2Fs00153-016-0498-3

  3. Integrating query of relational and textual data in clinical databases: a case study.

    Science.gov (United States)

    Fisk, John M; Mutalik, Pradeep; Levin, Forrest W; Erdos, Joseph; Taylor, Caroline; Nadkarni, Prakash

    2003-01-01

    The authors designed and implemented a clinical data mart composed of an integrated information retrieval (IR) and relational database management system (RDBMS). Using commodity software, which supports interactive, attribute-centric text and relational searches, the mart houses 2.8 million documents that span a five-year period and supports basic IR features such as Boolean searches, stemming, and proximity and fuzzy searching. Results are relevance-ranked using either "total documents per patient" or "report type weighting." Non-curated medical text has a significant degree of malformation with respect to spelling and punctuation, which creates difficulties for text indexing and searching. Presently, the IR facilities of RDBMS packages lack the features necessary to handle such malformed text adequately. A robust IR+RDBMS system can be developed, but it requires integrating RDBMSs with third-party IR software. RDBMS vendors need to make their IR offerings more accessible to non-programmers.

  4. The relative age effect in a professional football club setting.

    Science.gov (United States)

    Mujika, Iñigo; Vaeyens, Roel; Matthys, Stijn P J; Santisteban, Juanma; Goiriena, Juan; Philippaerts, Renaat

    2009-09-01

    The relative age effect is an uneven distribution of birth date favouring subjects born in the initial months of a selection year. This study compared the birth-date distributions between several subgroups of Basque football players to identify whether the relative age effect is influenced by age and/or skill level. The study comprised 13,519 players including 114 senior professionals from the Spanish league's AC Bilbao over 21 seasons; over the season 2005-2006, it comprised elite youth (n=189) from the same club's academy; regional youth (n=4382) U11-U14 locally federated players; school youth (n=8834) U10-U11 locally registered school district players. Differences between the observed and expected birth-date distributions were tested based on data from the general Basque male population. Significant chi-square values were followed up by calculating odds ratios and 95% confidence intervals (CI) for the quartile and half-year distributions to examine subgroup differences in the relative age effect. Birth-date distributions of all groups of players showed a significant bias towards early birth in the selection year compared with the reference population (senior, chi-2(3) = 24.4, P talent.

  5. Novel Visualization of Large Health Related Data Sets

    Science.gov (United States)

    2015-03-01

    lower all-cause mortality. 3 While large cross-sectional studies of populations such as the National Health and Nutrition Examination Survey find a...due to impaired renal and hepatic metabolism, decreased dietary intake related to anorexia or nausea, and falsely low HbA1c secondary to uremia or...Renal Nutrition . 2009:19(1):33- 37. 2014 Workshop on Visual Analytics in Healthcare ! ! !"#$%&’(%’$)*+%,"’#%-’$%./*.0*12,$)345%6)*7’$%./’#*8)’#$9*1

  6. BEHAVIOR PRE-SET IN RELATIONS INTERPERSONAL ORGANIZATIONAL

    Directory of Open Access Journals (Sweden)

    Newton Fernandes de Ávila

    2015-12-01

    Full Text Available This article provides a study on the behavior and communication, and takes care not only to inform, but to reflect the actions and reactions in a contemporary universe. Thus, to achieve the proposed objective, it sought as methodology, the theoretical framework related to knowledge and communication in organizations. Thus, there was the need of the individual to be constantly learning in order to create and establish close between the action and the ability to push boundaries, not limited knowledge at the thought, but the practical application of communication, permeating the perception and modifying behaviors.

  7. Review on management of horticultural plant germplasm resources and construction of related database

    Directory of Open Access Journals (Sweden)

    Pan Jingxian

    2017-02-01

    Full Text Available The advances of databases on horticulture germplasm resources from China and abroad was briefly reviewed and the key technologies were discussed in details,especially in descriptors of data collection of germplasm resources. The prospective and challenges of databases were also discussed. It was evident that there was an urgent need to develop the databases of horticulture germplasm resources,with increasing diversity of germplasm,more user friendly and systematically access to the databases.

  8. CORAL Server and CORAL Server Proxy: Scalable Access to Relational Databases from CORAL Applications

    CERN Document Server

    Valassi, A; Kalkhof, A; Salnikov, A; Wache, M

    2011-01-01

    The CORAL software is widely used at CERN for accessing the data stored by the LHC experiments using relational database technologies. CORAL provides a C++ abstraction layer that supports data persistency for several backends and deployment models, including local access to SQLite files, direct client access to Oracle and MySQL servers, and read-only access to Oracle through the FroNTier web server and cache. Two new components have recently been added to CORAL to implement a model involving a middle tier "CORAL server" deployed close to the database and a tree of "CORAL server proxy" instances, with data caching and multiplexing functionalities, deployed close to the client. The new components are meant to provide advantages for read-only and read-write data access, in both offline and online use cases, in the areas of scalability and performance (multiplexing for several incoming connections, optional data caching) and security (authentication via proxy certificates). A first implementation of the two new c...

  9. A Framework for Mapping User-Designed Forms to Relational Databases

    Science.gov (United States)

    Khare, Ritu

    2011-01-01

    In the quest for database usability, several applications enable users to design custom forms using a graphical interface, and forward engineer the forms into new databases. The path-breaking aspect of such applications is that users are completely shielded from the technicalities of database creation. Despite this innovation, the process of…

  10. DataCell: Exploiting the Power of Relational Databases for Efficient Stream Processing

    NARCIS (Netherlands)

    E. Liarou (Erietta); M.L. Kersten (Martin)

    2009-01-01

    htmlabstractDesigned for complex event processing, DataCell is a research prototype database system in the area of sensor stream systems. Under development at CWI, it belongs to the MonetDB database system family. CWI researchers innovatively built a stream engine directly on top of a database

  11. Flashflood-related mortality in southern France: first results from a new database

    Directory of Open Access Journals (Sweden)

    Vinet Freddy

    2016-01-01

    Full Text Available Over the last 25 years, flash floods in the South of France have killed almost 250 people. The protection of prone populations is a priority for the French government. It is also a goal of the 2007 European flood directive. However, no accurate database exists gathering the fatalities due to floods in France. Fatalities are supposed to be rare and hazardous, mainly due to individual behaviour. A Ph. D. work has initiated the building of a database gathering a detailed analysis of the circumstances of death and the profiles of the deceased (age, gender…. The study area covers the French Mediterranean departments prone to flash floods over the period 1988-2015. This presentation details the main features of the sample, 244 fatalities collected through newspapers completed with field surveys near police services and municipalities. The sample is broken down between huge events that account for two thirds of the fatalities and “small” events (34 % of the fatalities. Deaths at home account for 35 % of the total number of fatalities, mainly during huge events. 30 % of fatalities are related to vehicles. The last part of the work explains the relations between fatalities and prevention and how better knowledge of flood-related deaths can help to improve flood prevention. The given example shows the relationship between flood forecasting and fatalities. Half of the deaths took place in a small watershed (<150 km2. It emphasizes the need for the dissemination of a complementary system of flash flood forecast based on forecasted rainfall depth and adapted to small watersheds.

  12. Factors related to ostomy leakage in the community setting.

    Science.gov (United States)

    Ratliff, Catherine R

    2014-01-01

    The purpose of this study was to describe demographic and clinical variables related to ostomy pouch leakage from those discharged from a major medical center during a 2-year period. A convenience sample of 198 persons with an ostomy was obtained using the ICD-9 (International Classification of Diseases, Ninth Revision) codes for colostomy, ileostomy, and ileal conduit for patients who were discharged from the medical center within the time frame of July 2009 to July 2011. One hundred seven participants (55%) returned a completed survey. Respondents included 57 men (53%) and 50 women (47%). The mean age was 60 years with age range from 23 to 91 years. Fecal ostomies made up the majority of the stomas representing 71 patients (66%). A descriptive, cross-sectional research design was used to describe clinical variables related to ostomy pouch leakage for those discharged from a major academic medical center over a 2-year period of time. Participants were mailed an introductory letter from the principal investigator, a self-administered questionnaire, and a prepaid return envelope. Ninety-three patients (87%) reported leakage; however, 48 patients (45%) stated that they did not leak often. A logistic regression was estimated to determine which variables were significant predictors of the dependent variable of leaking status (no/seldom leaking vs more frequent leaking). Two variables were individually significant predictors, sex (P = .021) and 2-piece pouch (P = .015). Women were 4 times more likely to be in the more frequent leaking group than were men. Those who were wearing 2-piece pouches were 78% less likely to be in the more frequent leaking group. Participants with ileostomies or urostomies were more likely to be in the more frequent leaking group and those with peristomal skin irritation were more likely to be in the more frequent leaking group. Findings from this study reveal that women were more likely to experience leakage than men and that wearing a 2-piece

  13. Keyword Query Expansion Paradigm Based on Recommendation and Interpretation in Relational Databases

    Directory of Open Access Journals (Sweden)

    Yingqi Wang

    2017-01-01

    Full Text Available Due to the ambiguity and impreciseness of keyword query in relational databases, the research on keyword query expansion has attracted wide attention. Existing query expansion methods expose users’ query intention to a certain extent, but most of them cannot balance the precision and recall. To address this problem, a novel two-step query expansion approach is proposed based on query recommendation and query interpretation. First, a probabilistic recommendation algorithm is put forward by constructing a term similarity matrix and Viterbi model. Second, by using the translation algorithm of triples and construction algorithm of query subgraphs, query keywords are translated to query subgraphs with structural and semantic information. Finally, experimental results on a real-world dataset demonstrate the effectiveness and rationality of the proposed method.

  14. Making species checklists understandable to machines - a shift from relational databases to ontologies.

    Science.gov (United States)

    Laurenne, Nina; Tuominen, Jouni; Saarenmaa, Hannu; Hyvönen, Eero

    2014-01-01

    The scientific names of plants and animals play a major role in Life Sciences as information is indexed, integrated, and searched using scientific names. The main problem with names is their ambiguous nature, because more than one name may point to the same taxon and multiple taxa may share the same name. In addition, scientific names change over time, which makes them open to various interpretations. Applying machine-understandable semantics to these names enables efficient processing of biological content in information systems. The first step is to use unique persistent identifiers instead of name strings when referring to taxa. The most commonly used identifiers are Life Science Identifiers (LSID), which are traditionally used in relational databases, and more recently HTTP URIs, which are applied on the Semantic Web by Linked Data applications. We introduce two models for expressing taxonomic information in the form of species checklists. First, we show how species checklists are presented in a relational database system using LSIDs. Then, in order to gain a more detailed representation of taxonomic information, we introduce meta-ontology TaxMeOn to model the same content as Semantic Web ontologies where taxa are identified using HTTP URIs. We also explore how changes in scientific names can be managed over time. The use of HTTP URIs is preferable for presenting the taxonomic information of species checklists. An HTTP URI identifies a taxon and operates as a web address from which additional information about the taxon can be located, unlike LSID. This enables the integration of biological data from different sources on the web using Linked Data principles and prevents the formation of information silos. The Linked Data approach allows a user to assemble information and evaluate the complexity of taxonomical data based on conflicting views of taxonomic classifications. Using HTTP URIs and Semantic Web technologies also facilitate the representation of the

  15. Time Series Discord Detection in Medical Data using a Parallel Relational Database [PowerPoint

    Energy Technology Data Exchange (ETDEWEB)

    Woodbridge, Diane; Wilson, Andrew T.; Rintoul, Mark Daniel; Goldstein, Richard H.

    2015-11-01

    Recent advances in sensor technology have made continuous real-time health monitoring available in both hospital and non-hospital settings. Since data collected from high frequency medical sensors includes a huge amount of data, storing and processing continuous medical data is an emerging big data area. Especially detecting anomaly in real time is important for patients’ emergency detection and prevention. A time series discord indicates a subsequence that has the maximum difference to the rest of the time series subsequences, meaning that it has abnormal or unusual data trends. In this study, we implemented two versions of time series discord detection algorithms on a high performance parallel database management system (DBMS) and applied them to 240 Hz waveform data collected from 9,723 patients. The initial brute force version of the discord detection algorithm takes each possible subsequence and calculates a distance to the nearest non-self match to find the biggest discords in time series. For the heuristic version of the algorithm, a combination of an array and a trie structure was applied to order time series data for enhancing time efficiency. The study results showed efficient data loading, decoding and discord searches in a large amount of data, benefiting from the time series discord detection algorithm and the architectural characteristics of the parallel DBMS including data compression, data pipe-lining, and task scheduling.

  16. Time Series Discord Detection in Medical Data using a Parallel Relational Database

    Energy Technology Data Exchange (ETDEWEB)

    Woodbridge, Diane; Rintoul, Mark Daniel; Wilson, Andrew T.; Goldstein, Richard

    2015-10-01

    Recent advances in sensor technology have made continuous real-time health monitoring available in both hospital and non-hospital settings. Since data collected from high frequency medical sensors includes a huge amount of data, storing and processing continuous medical data is an emerging big data area. Especially detecting anomaly in real time is important for patients’ emergency detection and prevention. A time series discord indicates a subsequence that has the maximum difference to the rest of the time series subsequences, meaning that it has abnormal or unusual data trends. In this study, we implemented two versions of time series discord detection algorithms on a high performance parallel database management system (DBMS) and applied them to 240 Hz waveform data collected from 9,723 patients. The initial brute force version of the discord detection algorithm takes each possible subsequence and calculates a distance to the nearest non-self match to find the biggest discords in time series. For the heuristic version of the algorithm, a combination of an array and a trie structure was applied to order time series data for enhancing time efficiency. The study results showed efficient data loading, decoding and discord searches in a large amount of data, benefiting from the time series discord detection algorithm and the architectural characteristics of the parallel DBMS including data compression, data pipe-lining, and task scheduling.

  17. ORFer--retrieval of protein sequences and open reading frames from GenBank and storage into relational databases or text files.

    Science.gov (United States)

    Büssow, Konrad; Hoffmann, Steve; Sievert, Volker

    2002-12-19

    Functional genomics involves the parallel experimentation with large sets of proteins. This requires management of large sets of open reading frames as a prerequisite of the cloning and recombinant expression of these proteins. A Java program was developed for retrieval of protein and nucleic acid sequences and annotations from NCBI GenBank, using the XML sequence format. Annotations retrieved by ORFer include sequence name, organism and also the completeness of the sequence. The program has a graphical user interface, although it can be used in a non-interactive mode. For protein sequences, the program also extracts the open reading frame sequence, if available, and checks its correct translation. ORFer accepts user input in the form of single or lists of GenBank GI identifiers or accession numbers. It can be used to extract complete sets of open reading frames and protein sequences from any kind of GenBank sequence entry, including complete genomes or chromosomes. Sequences are either stored with their features in a relational database or can be exported as text files in Fasta or tabulator delimited format. The ORFer program is freely available at http://www.proteinstrukturfabrik.de/orfer. The ORFer program allows for fast retrieval of DNA sequences, protein sequences and their open reading frames and sequence annotations from GenBank. Furthermore, storage of sequences and features in a relational database is supported. Such a database can supplement a laboratory information system (LIMS) with appropriate sequence information.

  18. Legacy2Drupal: Conversion of an existing relational oceanographic database to a Drupal 7 CMS

    Science.gov (United States)

    Work, T. T.; Maffei, A. R.; Chandler, C. L.; Groman, R. C.

    2011-12-01

    Content Management Systems (CMSs) such as Drupal provide powerful features that can be of use to oceanographic (and other geo-science) data managers. However, in many instances, geo-science data management offices have already designed and implemented customized schemas for their metadata. The NSF funded Biological Chemical and Biological Data Management Office (BCO-DMO) has ported an existing relational database containing oceanographic metadata, along with an existing interface coded in Cold Fusion middleware, to a Drupal 7 Content Management System. This is an update on an effort described as a proof-of-concept in poster IN21B-1051, presented at AGU2009. The BCO-DMO project has translated all the existing database tables, input forms, website reports, and other features present in the existing system into Drupal CMS features. The replacement features are made possible by the use of Drupal content types, CCK node-reference fields, a custom theme, and a number of other supporting modules. This presentation describes the process used to migrate content in the original BCO-DMO metadata database to Drupal 7, some problems encountered during migration, and the modules used to migrate the content successfully. Strategic use of Drupal 7 CMS features that enable three separate but complementary interfaces to provide access to oceanographic research metadata will also be covered: 1) a Drupal 7-powered user front-end; 2) REST-ful JSON web services (providing a Mapserver interface to the metadata and data; and 3) a SPARQL interface to a semantic representation of the repository metadata (this feeding a new faceted search capability currently under development). The existing BCO-DMO ontology, developed in collaboration with Rensselaer Polytechnic Institute's Tetherless World Constellation, makes strategic use of pre-existing ontologies and will be used to drive semantically-enabled faceted search capabilities planned for the site. At this point, the use of semantic

  19. NODC Standard Product: NOAA Marine environmental buoy database 1993 with Updates (19 disc set) (NCEI Accession 0095199)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This set of CD-ROMs holds marine meteorological, oceanographic, and wave spectra data collected by moored buoys and C-MAN (Coastal-Marine Automated Network) stations...

  20. Using relational databases to collect and store discrete-event simulation results

    DEFF Research Database (Denmark)

    Poderys, Justas; Soler, José

    2016-01-01

    , export the results to a data carrier file and then process the results stored in a file using the data processing software. In this work, we propose to save the simulation results directly from a simulation tool to a computer database. We implemented a link between the discrete-even simulation tool...... and the database and performed performance evaluation of 3 different open-source database systems. We show, that with a right choice of a database system, simulation results can be collected and exported up to 2.67 times faster, and use 1.78 times less disk space when compared to using simulation software built...

  1. SFCOMPO 2.0 - A relational database of spent fuel isotopic measurements, reactor operational histories, and design data

    Science.gov (United States)

    Michel-Sendis, Franco; Martinez-González, Jesus; Gauld, Ian

    2017-09-01

    SFCOMPO-2.0 is a database of experimental isotopic concentrations measured in destructive radiochemical analysis of spent nuclear fuel (SNF) samples. The database includes corresponding design description of the fuel rods and assemblies, relevant operating conditions and characteristics of the host reactors necessary for modelling and simulation. Aimed at establishing a thorough, reliable, and publicly available resource for code and data validation of safety-related applications, SFCOMPO-2.0 is developed and maintained by the OECD Nuclear Energy Agency (NEA). The SFCOMPO-2.0 database is a Java application which is downloadable from the NEA website.

  2. SFCOMPO 2.0 – A relational database of spent fuel isotopic measurements, reactor operational histories, and design data

    Directory of Open Access Journals (Sweden)

    Michel-Sendis Franco

    2017-01-01

    Full Text Available SFCOMPO-2.0 is a database of experimental isotopic concentrations measured in destructive radiochemical analysis of spent nuclear fuel (SNF samples. The database includes corresponding design description of the fuel rods and assemblies, relevant operating conditions and characteristics of the host reactors necessary for modelling and simulation. Aimed at establishing a thorough, reliable, and publicly available resource for code and data validation of safety-related applications, SFCOMPO-2.0 is developed and maintained by the OECD Nuclear Energy Agency (NEA. The SFCOMPO-2.0 database is a Java application which is downloadable from the NEA website.

  3. The Significance of HIV ‘Blips’ in Resource-Limited Settings: Is It the Same? Analysis of the Treat Asia HIV Observational Database (TAHOD) and the Australian HIV Observational Database (AHOD)

    Science.gov (United States)

    Kanapathipillai, Rupa; McManus, Hamish; Kamarulzaman, Adeeba; Lim, Poh Lian; Templeton, David J.; Law, Matthew; Woolley, Ian

    2014-01-01

    Introduction Magnitude and frequency of HIV viral load blips in resource-limited settings, has not previously been assessed. This study was undertaken in a cohort from a high income country (Australia) known as AHOD (Australian HIV Observational Database) and another cohort from a mixture of Asian countries of varying national income per capita, TAHOD (TREAT Asia HIV Observational Database). Methods Blips were defined as detectable VL (≥ 50 copies/mL) preceded and followed by undetectable VL (failure (VF) was defined as two consecutive VL ≥50 copies/ml. Cox proportional hazard models of time to first VF after entry, were developed. Results 5040 patients (AHOD n = 2597 and TAHOD n = 2521) were included; 910 (18%) of patients experienced blips. 744 (21%) and 166 (11%) of high- and middle/low-income participants, respectively, experienced blips ever. 711 (14%) experienced blips prior to virological failure. 559 (16%) and 152 (10%) of high- and middle/low-income participants, respectively, experienced blips prior to virological failure. VL testing occurred at a median frequency of 175 and 91 days in middle/low- and high-income sites, respectively. Longer time to VF occurred in middle/low income sites, compared with high-income sites (adjusted hazards ratio (AHR) 0.41; pfailure (p = 0.360 for blip 50–≤1000, p = 0.309 for blip 50–≤400 and p = 0.300 for blip 50–≤200). 209 of 866 (24%) patients were switched to an alternate regimen in the setting of a blip. Conclusion Despite a lower proportion of blips occurring in low/middle-income settings, no significant difference was found between settings. Nonetheless, a substantial number of participants were switched to alternative regimens in the setting of blips. PMID:24516527

  4. Terminology of the public relations field: corpus — automatic term recognition — terminology database

    Directory of Open Access Journals (Sweden)

    Nataša Logar Berginc

    2013-12-01

    Full Text Available The article describes an analysis of automatic term recognition results performed for single- and multi-word terms with the LUIZ term extraction system. The target application of the results is a terminology database of Public Relations and the main resource the KoRP Public Relations Corpus. Our analysis is focused on two segments: (a single-word noun term candidates, which we compare with the frequency list of nouns from KoRP and evaluate termhood on the basis of the judgements of two domain experts, and (b multi-word term candidates with verb and noun as headword. In order to better assess the performance of the system and the soundness of our approach we also performed an analysis of recall. Our results show that the terminological relevance of extracted nouns is indeed higher than that of merely frequent nouns, and that verbal phrases only rarely count as proper terms. The most productive patterns of multi-word terms with noun as a headword have the following structure: [adjective + noun], [adjective + and + adjective + noun] and [adjective + adjective + noun]. The analysis of recall shows low inter-annotator agreement, but nevertheless very satisfactory recall levels.

  5. SU-F-P-10: A Web-Based Radiation Safety Relational Database Module for Regulatory Compliance

    Energy Technology Data Exchange (ETDEWEB)

    Rosen, C; Ramsay, B; Konerth, S; Roller, D; Ramsay, A [Dade Moeller Health Group, Kalamazoo, MI (United States)

    2016-06-15

    Purpose: Maintaining compliance with Radioactive Materials Licenses is inherently a time-consuming task requiring focus and attention to detail. Staff tasked with these responsibilities, such as the Radiation Safety Officer and associated personnel must retain disparate records for eventual placement into one or more annual reports. Entering results and records in a relational database using a web browser as the interface, and storing that data in a cloud-based storage site, removes procedural barriers. The data becomes more adaptable for mining and sharing. Methods: Web-based code was written utilizing the web framework Django, written in Python. Additionally, the application utilizes JavaScript for front-end interaction, SQL, HTML and CSS. Quality assurance code testing is performed in a sequential style, and new code is only added after the successful testing of the previous goals. Separate sections of the module include data entry and analysis for audits, surveys, quality management, and continuous quality improvement. Data elements can be adapted for quarterly and annual reporting, and for immediate notification of user determined alarm settings. Results: Current advances are focusing on user interface issues, and determining the simplest manner by which to teach the user to build query forms. One solution has been to prepare library documents that a user can select or edit in place of creation a new document. Forms are being developed based upon Nuclear Regulatory Commission federal code, and will be expanded to include State Regulations. Conclusion: Establishing a secure website to act as the portal for data entry, storage and manipulation can lead to added efficiencies for a Radiation Safety Program. Access to multiple databases can lead to mining for big data programs, and for determining safety issues before they occur. Overcoming web programming challenges, a category that includes mathematical handling, is providing challenges that are being overcome.

  6. SU-F-P-10: A Web-Based Radiation Safety Relational Database Module for Regulatory Compliance

    International Nuclear Information System (INIS)

    Rosen, C; Ramsay, B; Konerth, S; Roller, D; Ramsay, A

    2016-01-01

    Purpose: Maintaining compliance with Radioactive Materials Licenses is inherently a time-consuming task requiring focus and attention to detail. Staff tasked with these responsibilities, such as the Radiation Safety Officer and associated personnel must retain disparate records for eventual placement into one or more annual reports. Entering results and records in a relational database using a web browser as the interface, and storing that data in a cloud-based storage site, removes procedural barriers. The data becomes more adaptable for mining and sharing. Methods: Web-based code was written utilizing the web framework Django, written in Python. Additionally, the application utilizes JavaScript for front-end interaction, SQL, HTML and CSS. Quality assurance code testing is performed in a sequential style, and new code is only added after the successful testing of the previous goals. Separate sections of the module include data entry and analysis for audits, surveys, quality management, and continuous quality improvement. Data elements can be adapted for quarterly and annual reporting, and for immediate notification of user determined alarm settings. Results: Current advances are focusing on user interface issues, and determining the simplest manner by which to teach the user to build query forms. One solution has been to prepare library documents that a user can select or edit in place of creation a new document. Forms are being developed based upon Nuclear Regulatory Commission federal code, and will be expanded to include State Regulations. Conclusion: Establishing a secure website to act as the portal for data entry, storage and manipulation can lead to added efficiencies for a Radiation Safety Program. Access to multiple databases can lead to mining for big data programs, and for determining safety issues before they occur. Overcoming web programming challenges, a category that includes mathematical handling, is providing challenges that are being overcome.

  7. Rdesign: A data dictionary with relational database design capabilities in Ada

    Science.gov (United States)

    Lekkos, Anthony A.; Kwok, Teresa Ting-Yin

    1986-01-01

    Data Dictionary is defined to be the set of all data attributes, which describe data objects in terms of their intrinsic attributes, such as name, type, size, format and definition. It is recognized as the data base for the Information Resource Management, to facilitate understanding and communication about the relationship between systems applications and systems data usage and to help assist in achieving data independence by permitting systems applications to access data knowledge of the location or storage characteristics of the data in the system. A research and development effort to use Ada has produced a data dictionary with data base design capabilities. This project supports data specification and analysis and offers a choice of the relational, network, and hierarchical model for logical data based design. It provides a highly integrated set of analysis and design transformation tools which range from templates for data element definition, spreadsheet for defining functional dependencies, normalization, to logical design generator.

  8. The Erasmus insurance case and a related questionnaire for distributed database management systems

    NARCIS (Netherlands)

    S.C. van der Made-Potuijt

    1990-01-01

    textabstractThis is the third report concerning transaction management in the database environment. In the first report the role of the transaction manager in protecting the integrity of a database has been studied [van der Made-Potuijt 1989]. In the second report a model has been given for a

  9. BioMagResBank database with sets of experimental NMR constraints corresponding to the structures of over 1400 biomolecules deposited in the Protein Data Bank

    International Nuclear Information System (INIS)

    Doreleijers, Jurgen F.; Mading, Steve; Maziuk, Dimitri; Sojourner, Kassandra; Yin Lei; Zhu Jun; Markley, John L.; Ulrich, Eldon L.

    2003-01-01

    Experimental constraints associated with NMR structures are available from the Protein Data Bank (PDB) in the form of 'Magnetic Resonance' (MR) files. These files contain multiple types of data concatenated without boundary markers and are difficult to use for further research. Reported here are the results of a project initiated to annotate, archive, and disseminate these data to the research community from a searchable resource in a uniform format. The MR files from a set of 1410 NMR structures were analyzed and their original constituent data blocks annotated as to data type using a semi-automated protocol. A new software program called Wattos was then used to parse and archive the data in a relational database. From the total number of MR file blocks annotated as constraints, it proved possible to parse 84% (3337/3975). The constraint lists that were parsed correspond to three data types (2511 distance, 788 dihedral angle, and 38 residual dipolar couplings lists) from the three most popular software packages used in NMR structure determination: XPLOR/CNS (2520 lists), DISCOVER (412 lists), and DYANA/DIANA (405 lists). These constraints were then mapped to a developmental version of the BioMagResBank (BMRB) data model. A total of 31 data types originating from 16 programs have been classified, with the NOE distance constraint being the most commonly observed. The results serve as a model for the development of standards for NMR constraint deposition in computer-readable form. The constraints are updated regularly and are available from the BMRB web site (http://www.bmrb.wisc.edu)

  10. Monitoring of services with non-relational databases and map-reduce framework

    CERN Document Server

    Babik, M; CERN. Geneva. IT Department

    2012-01-01

    Service Availability Monitoring (SAM) is a well-established monitoring framework that performs regular measurements of the core site services and reports the corresponding availability and reliability of the Worldwide LHC Computing Grid (WLCG) infrastructure. One of the existing extensions of SAM is Site Wide Area Testing (SWAT), which gathers monitoring information from the worker nodes via instrumented jobs. This generates quite a lot of monitoring data to process, as there are several data points for every job and several million jobs are executed every day. The recent uptake of non-relational databases opens a new paradigm in the large-scale storage and distributed processing of systems with heavy read-write workloads. For SAM this brings new possibilities to improve its model, from performing aggregation of measurements to storing raw data and subsequent re-processing. Both SAM and SWAT are currently tuned to run at top performance, reaching some of the limits in storage and processing power of their exi...

  11. A Relational Database Model for Managing Accelerator Control System Software at Jefferson Lab

    International Nuclear Information System (INIS)

    Sally Schaffner; Theodore Larrieu

    2001-01-01

    The operations software group at the Thomas Jefferson National Accelerator Facility faces a number of challenges common to facilities which manage a large body of software developed in-house. Developers include members of the software group, operators, hardware engineers and accelerator physicists.One management problem has been ensuring that all software has an identified owner who is still working at the lab. In some cases, locating source code for ''orphaned'' software has also proven to be difficult. Other challenges include ensuring that working versions of all operational software are available, testing changes to operational software without impacting operations, upgrading infrastructure software (OS, compilers, interpreters, commercial packages, share/freeware, etc), ensuring that appropriate documentation is available and up to date, underutilization of code reuse, input/output file management,and determining what other software will break if a software package is upgraded. This paper will describe a relational database model which has been developed to track this type of information and make it available to managers and developers.The model also provides a foundation for developing productivity-enhancing tools for automated building, versioning, and installation of software. This work was supported by the U.S. DOE contract No. DE-AC05-84ER40150

  12. Find the fish: using PROC SQL to build a relational database

    Science.gov (United States)

    Fabrizio, Mary C.; Nelson, Scott N.

    1995-01-01

    Reliable estimates of abundance and survival, gained through mark-recapture studies, are necessary to better understand how to manage and restore lake trout populations in the Great Lakes. Working with a 24-year data set from a mark-recapture study conducted in Lake Superior, we attempted to disclose information on tag shedding by examining recaptures of double-tagged fish. The data set consisted of 64,288 observations on fish which had been marked with one or more tags; a subset of these fish had been marked with two tags at initial capture. Although DATA and PROC statements could be used to obtain some of the information we sought, these statements could not be used to extract a complete set of results from the double-tagging experiments. We therefore used SQL processing to create three tables representing the same information but in a fully normalized relational structure. In addition, we created indices to efficiently examine complex relationships among the individual capture records. This approach allowed us to obtain all the information necessary to estimate tag retention through subsequent modeling. We believe that our success with SQL was due in large part to its ability to simultaneosly scan the same table more than once and to permit consideration of other tables in sub-queries.

  13. Complement Set Reference after Implicitly Small Quantities: An Event-Related Potentials Study

    Science.gov (United States)

    Ingram, Joanne; Ferguson, Heather J.

    2018-01-01

    An anaphoric reference to the complement-set is a reference to the set that does not fulfil the predicate of the preceding sentence. Preferred reference to the complement-set has been found in eye movements when a character's implicit desire for a high amount has been denied using a negative emotion. We recorded event-related potentials to examine…

  14. Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases.

    Science.gov (United States)

    Wollbrett, Julien; Larmande, Pierre; de Lamotte, Frédéric; Ruiz, Manuel

    2013-04-15

    In recent years, a large amount of "-omics" data have been produced. However, these data are stored in many different species-specific databases that are managed by different institutes and laboratories. Biologists often need to find and assemble data from disparate sources to perform certain analyses. Searching for these data and assembling them is a time-consuming task. The Semantic Web helps to facilitate interoperability across databases. A common approach involves the development of wrapper systems that map a relational database schema onto existing domain ontologies. However, few attempts have been made to automate the creation of such wrappers. We developed a framework, named BioSemantic, for the creation of Semantic Web Services that are applicable to relational biological databases. This framework makes use of both Semantic Web and Web Services technologies and can be divided into two main parts: (i) the generation and semi-automatic annotation of an RDF view; and (ii) the automatic generation of SPARQL queries and their integration into Semantic Web Services backbones. We have used our framework to integrate genomic data from different plant databases. BioSemantic is a framework that was designed to speed integration of relational databases. We present how it can be used to speed the development of Semantic Web Services for existing relational biological databases. Currently, it creates and annotates RDF views that enable the automatic generation of SPARQL queries. Web Services are also created and deployed automatically, and the semantic annotations of our Web Services are added automatically using SAWSDL attributes. BioSemantic is downloadable at http://southgreen.cirad.fr/?q=content/Biosemantic.

  15. Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases

    Science.gov (United States)

    2013-01-01

    Background In recent years, a large amount of “-omics” data have been produced. However, these data are stored in many different species-specific databases that are managed by different institutes and laboratories. Biologists often need to find and assemble data from disparate sources to perform certain analyses. Searching for these data and assembling them is a time-consuming task. The Semantic Web helps to facilitate interoperability across databases. A common approach involves the development of wrapper systems that map a relational database schema onto existing domain ontologies. However, few attempts have been made to automate the creation of such wrappers. Results We developed a framework, named BioSemantic, for the creation of Semantic Web Services that are applicable to relational biological databases. This framework makes use of both Semantic Web and Web Services technologies and can be divided into two main parts: (i) the generation and semi-automatic annotation of an RDF view; and (ii) the automatic generation of SPARQL queries and their integration into Semantic Web Services backbones. We have used our framework to integrate genomic data from different plant databases. Conclusions BioSemantic is a framework that was designed to speed integration of relational databases. We present how it can be used to speed the development of Semantic Web Services for existing relational biological databases. Currently, it creates and annotates RDF views that enable the automatic generation of SPARQL queries. Web Services are also created and deployed automatically, and the semantic annotations of our Web Services are added automatically using SAWSDL attributes. BioSemantic is downloadable at http://southgreen.cirad.fr/?q=content/Biosemantic. PMID:23586394

  16. A high performance, ad-hoc, fuzzy query processing system for relational databases

    Science.gov (United States)

    Mansfield, William H., Jr.; Fleischman, Robert M.

    1992-01-01

    Database queries involving imprecise or fuzzy predicates are currently an evolving area of academic and industrial research. Such queries place severe stress on the indexing and I/O subsystems of conventional database environments since they involve the search of large numbers of records. The Datacycle architecture and research prototype is a database environment that uses filtering technology to perform an efficient, exhaustive search of an entire database. It has recently been modified to include fuzzy predicates in its query processing. The approach obviates the need for complex index structures, provides unlimited query throughput, permits the use of ad-hoc fuzzy membership functions, and provides a deterministic response time largely independent of query complexity and load. This paper describes the Datacycle prototype implementation of fuzzy queries and some recent performance results.

  17. Introducing the Oxford Vocal (OxVoc Sounds Database: A validated set of non-acted affective sounds from human infants, adults and domestic animals

    Directory of Open Access Journals (Sweden)

    Christine eParsons

    2014-06-01

    Full Text Available Sound moves us. Nowhere is this more apparent than in our responses to genuine emotional vocalisations, be they heartfelt distress cries or raucous laughter. Here, we present perceptual ratings and a description of a freely available, large database of natural affective vocal sounds from human infants, adults and domestic animals, the Oxford Vocal (OxVoc Sounds database. This database consists of 173 non-verbal sounds expressing a range of happy, sad and neutral emotional states. Ratings are presented for the sounds on a range of dimensions from a number of independent participant samples. Perceptions related to valence, including distress, vocaliser mood, and listener mood are presented in Study 1. Perceptions of the arousal of the sound, listener motivation to respond and valence (positive, negative are presented in Study 2. Perceptions of the emotional content of the stimuli in both Study 1 and Study 2 were consistent with the predefined categories (e.g., laugh stimuli perceived as positive. While the adult vocalisations received more extreme valence ratings, rated motivation to respond to the sounds was highest for the infant sounds. The major advantages of this database are the inclusion of vocalisations from naturalistic situations, which represent genuine expressions of emotion, and the inclusion of vocalisations from animals and infants, providing comparison stimuli for use in cross-species and developmental studies. The associated website provides a detailed description of the physical properties of the each sound stimulus along with cross-category descriptions.

  18. An examination of intrinsic errors in electronic structure methods using the Environmental Molecular Sciences Laboratory computational results database and the Gaussian-2 set

    International Nuclear Information System (INIS)

    Feller, D.; Peterson, K.A.

    1998-01-01

    The Gaussian-2 (G2) collection of atoms and molecules has been studied with Hartree endash Fock and correlated levels of theory, ranging from second-order perturbation theory to coupled cluster theory with noniterative inclusion of triple excitations. By exploiting the systematic convergence properties of the correlation consistent family of basis sets, complete basis set limits were estimated for a large number of the G2 energetic properties. Deviations with respect to experimentally derived energy differences corresponding to rigid molecules were obtained for 15 basis set/method combinations, as well as the estimated complete basis set limit. The latter values are necessary for establishing the intrinsic error for each method. In order to perform this analysis, the information generated in the present study was combined with the results of many previous benchmark studies in an electronic database, where it is available for use by other software tools. Such tools can assist users of electronic structure codes in making appropriate basis set and method choices that will increase the likelihood of achieving their accuracy goals without wasteful expenditures of computer resources. copyright 1998 American Institute of Physics

  19. Supplementing electronic health records through sample collection and patient diaries: A study set within a primary care research database.

    Science.gov (United States)

    Joseph, Rebecca M; Soames, Jamie; Wright, Mark; Sultana, Kirin; van Staa, Tjeerd P; Dixon, William G

    2018-02-01

    To describe a novel observational study that supplemented primary care electronic health record (EHR) data with sample collection and patient diaries. The study was set in primary care in England. A list of 3974 potentially eligible patients was compiled using data from the Clinical Practice Research Datalink. Interested general practices opted into the study then confirmed patient suitability and sent out postal invitations. Participants completed a drug-use diary and provided saliva samples to the research team to combine with EHR data. Of 252 practices contacted to participate, 66 (26%) mailed invitations to patients. Of the 3974 potentially eligible patients, 859 (22%) were at participating practices, and 526 (13%) were sent invitations. Of those invited, 117 (22%) consented to participate of whom 86 (74%) completed the study. We have confirmed the feasibility of supplementing EHR with data collected directly from patients. Although the present study successfully collected essential data from patients, it also underlined the requirement for improved engagement with both patients and general practitioners to support similar studies. © 2017 The Authors. Pharmacoepidemiology & Drug Safety published by John Wiley & Sons Ltd.

  20. Database design using entity-relationship diagrams

    CERN Document Server

    Bagui, Sikha

    2011-01-01

    Data, Databases, and the Software Engineering ProcessDataBuilding a DatabaseWhat is the Software Engineering Process?Entity Relationship Diagrams and the Software Engineering Life Cycle          Phase 1: Get the Requirements for the Database          Phase 2: Specify the Database          Phase 3: Design the DatabaseData and Data ModelsFiles, Records, and Data ItemsMoving from 3 × 5 Cards to ComputersDatabase Models     The Hierarchical ModelThe Network ModelThe Relational ModelThe Relational Model and Functional DependenciesFundamental Relational DatabaseRelational Database and SetsFunctional

  1. The Ryerson Audio-Visual Database of Emotional Speech and Song (RAVDESS): A dynamic, multimodal set of facial and vocal expressions in North American English

    Science.gov (United States)

    Russo, Frank A.

    2018-01-01

    The RAVDESS is a validated multimodal database of emotional speech and song. The database is gender balanced consisting of 24 professional actors, vocalizing lexically-matched statements in a neutral North American accent. Speech includes calm, happy, sad, angry, fearful, surprise, and disgust expressions, and song contains calm, happy, sad, angry, and fearful emotions. Each expression is produced at two levels of emotional intensity, with an additional neutral expression. All conditions are available in face-and-voice, face-only, and voice-only formats. The set of 7356 recordings were each rated 10 times on emotional validity, intensity, and genuineness. Ratings were provided by 247 individuals who were characteristic of untrained research participants from North America. A further set of 72 participants provided test-retest data. High levels of emotional validity and test-retest intrarater reliability were reported. Corrected accuracy and composite "goodness" measures are presented to assist researchers in the selection of stimuli. All recordings are made freely available under a Creative Commons license and can be downloaded at https://doi.org/10.5281/zenodo.1188976. PMID:29768426

  2. Geroprotectors.org: a new, structured and curated database of current therapeutic interventions in aging and age-related disease

    Science.gov (United States)

    Moskalev, Alexey; Chernyagina, Elizaveta; de Magalhães, João Pedro; Barardo, Diogo; Thoppil, Harikrishnan; Shaposhnikov, Mikhail; Budovsky, Arie; Fraifeld, Vadim E.; Garazha, Andrew; Tsvetkov, Vasily; Bronovitsky, Evgeny; Bogomolov, Vladislav; Scerbacov, Alexei; Kuryan, Oleg; Gurinovich, Roman; Jellen, Leslie C.; Kennedy, Brian; Mamoshina, Polina; Dobrovolskaya, Evgeniya; Aliper, Alex; Kaminsky, Dmitry; Zhavoronkov, Alex

    2015-01-01

    As the level of interest in aging research increases, there is a growing number of geroprotectors, or therapeutic interventions that aim to extend the healthy lifespan and repair or reduce aging-related damage in model organisms and, eventually, in humans. There is a clear need for a manually-curated database of geroprotectors to compile and index their effects on aging and age-related diseases and link these effects to relevant studies and multiple biochemical and drug databases. Here, we introduce the first such resource, Geroprotectors (http://geroprotectors.org). Geroprotectors is a public, rapidly explorable database that catalogs over 250 experiments involving over 200 known or candidate geroprotectors that extend lifespan in model organisms. Each compound has a comprehensive profile complete with biochemistry, mechanisms, and lifespan effects in various model organisms, along with information ranging from chemical structure, side effects, and toxicity to FDA drug status. These are presented in a visually intuitive, efficient framework fit for casual browsing or in-depth research alike. Data are linked to the source studies or databases, providing quick and convenient access to original data. The Geroprotectors database facilitates cross-study, cross-organism, and cross-discipline analysis and saves countless hours of inefficient literature and web searching. Geroprotectors is a one-stop, knowledge-sharing, time-saving resource for researchers seeking healthy aging solutions. PMID:26342919

  3. The shortest path algorithm performance comparison in graph and relational database on a transportation network

    Directory of Open Access Journals (Sweden)

    Mario Miler

    2014-02-01

    Full Text Available In the field of geoinformation and transportation science, the shortest path is calculated on graph data mostly found in road and transportation networks. This data is often stored in various database systems. Many applications dealing with transportation network require calculation of the shortest path. The objective of this research is to compare the performance of Dijkstra shortest path calculation in PostgreSQL (with pgRouting and Neo4j graph database for the purpose of determining if there is any difference regarding the speed of the calculation. Benchmarking was done on commodity hardware using OpenStreetMap road network. The first assumption is that Neo4j graph database would be well suited for the shortest path calculation on transportation networks but this does not come without some cost. Memory proved to be an issue in Neo4j setup when dealing with larger transportation networks.

  4. Database development and management

    CERN Document Server

    Chao, Lee

    2006-01-01

    Introduction to Database Systems Functions of a DatabaseDatabase Management SystemDatabase ComponentsDatabase Development ProcessConceptual Design and Data Modeling Introduction to Database Design Process Understanding Business ProcessEntity-Relationship Data Model Representing Business Process with Entity-RelationshipModelTable Structure and NormalizationIntroduction to TablesTable NormalizationTransforming Data Models to Relational Databases .DBMS Selection Transforming Data Models to Relational DatabasesEnforcing ConstraintsCreating Database for Business ProcessPhysical Design and Database

  5. Teradata University Network: A No Cost Web-Portal for Teaching Database, Data Warehousing, and Data-Related Subjects

    Science.gov (United States)

    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…

  6. On Modeling the Behavior of Comparators for Complex Fuzzy Objects in a Fuzzy Object-Relational Database Management System

    Directory of Open Access Journals (Sweden)

    JuanM. Medina

    2012-08-01

    Full Text Available This paper proposes a parameterized definition for fuzzy comparators on complex fuzzy datatypes like fuzzy collections with conjunctive semantics and fuzzy objects. This definition and its implementation on a Fuzzy Object-Relational Database Management System (FORDBMS provides the designer with a powerful tool to adapt the behavior of these operators to the semantics of the considered application.

  7. Ontology to relational database transformation for web application development and maintenance

    Science.gov (United States)

    Mahmudi, Kamal; Inggriani Liem, M. M.; Akbar, Saiful

    2018-03-01

    Ontology is used as knowledge representation while database is used as facts recorder in a KMS (Knowledge Management System). In most applications, data are managed in a database system and updated through the application and then they are transformed to knowledge as needed. Once a domain conceptor defines the knowledge in the ontology, application and database can be generated from the ontology. Most existing frameworks generate application from its database. In this research, ontology is used for generating the application. As the data are updated through the application, a mechanism is designed to trigger an update to the ontology so that the application can be rebuilt based on the newest ontology. By this approach, a knowledge engineer has a full flexibility to renew the application based on the latest ontology without dependency to a software developer. In many cases, the concept needs to be updated when the data changed. The framework is built and tested in a spring java environment. A case study was conducted to proof the concepts.

  8. Design and implementation of relational databases relevant to the diverse needs of a tuberculosis case contact study in the Gambia.

    Science.gov (United States)

    Jeffries, D J; Donkor, S; Brookes, R H; Fox, A; Hill, P C

    2004-09-01

    The data requirements of a large multidisciplinary tuberculosis case contact study are complex. We describe an ACCESS-based relational database system that meets our rigorous requirements for data entry and validation, while being user-friendly, flexible, exportable, and easy to install on a network or stand alone system. This includes the development of a double data entry package for epidemiology and laboratory data, semi-automated entry of ELISPOT data directly from the plate reader, and a suite of new programmes for the manipulation and integration of flow cytometry data. The double entered epidemiology and immunology databases are combined into a separate database, providing a near-real-time analysis of immuno-epidemiological data, allowing important trends to be identified early and major decisions about the study to be made and acted on. This dynamic data management model is portable and can easily be applied to other studies.

  9. An application of a relational database system for high-throughput prediction of elemental compositions from accurate mass values.

    Science.gov (United States)

    Sakurai, Nozomu; Ara, Takeshi; Kanaya, Shigehiko; Nakamura, Yukiko; Iijima, Yoko; Enomoto, Mitsuo; Motegi, Takeshi; Aoki, Koh; Suzuki, Hideyuki; Shibata, Daisuke

    2013-01-15

    High-accuracy mass values detected by high-resolution mass spectrometry analysis enable prediction of elemental compositions, and thus are used for metabolite annotations in metabolomic studies. Here, we report an application of a relational database to significantly improve the rate of elemental composition predictions. By searching a database of pre-calculated elemental compositions with fixed kinds and numbers of atoms, the approach eliminates redundant evaluations of the same formula that occur in repeated calculations with other tools. When our approach is compared with HR2, which is one of the fastest tools available, our database search times were at least 109 times shorter than those of HR2. When a solid-state drive (SSD) was applied, the search time was 488 times shorter at 5 ppm mass tolerance and 1833 times at 0.1 ppm. Even if the search by HR2 was performed with 8 threads in a high-spec Windows 7 PC, the database search times were at least 26 and 115 times shorter without and with the SSD. These improvements were enhanced in a low spec Windows XP PC. We constructed a web service 'MFSearcher' to query the database in a RESTful manner. Available for free at http://webs2.kazusa.or.jp/mfsearcher. The web service is implemented in Java, MySQL, Apache and Tomcat, with all major browsers supported. sakurai@kazusa.or.jp Supplementary data are available at Bioinformatics online.

  10. RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimises protein identification, and archives data in a relational database.

    Science.gov (United States)

    Field, Helen I; Fenyö, David; Beavis, Ronald C

    2002-01-01

    RADARS, a rapid, automated, data archiving and retrieval software system for high-throughput proteomic mass spectral data processing and storage, is described. The majority of mass spectrometer data files are compatible with RADARS, for consistent processing. The system automatically takes unprocessed data files, identifies proteins via in silico database searching, then stores the processed data and search results in a relational database suitable for customized reporting. The system is robust, used in 24/7 operation, accessible to multiple users of an intranet through a web browser, may be monitored by Virtual Private Network, and is secure. RADARS is scalable for use on one or many computers, and is suited to multiple processor systems. It can incorporate any local database in FASTA format, and can search protein and DNA databases online. A key feature is a suite of visualisation tools (many available gratis), allowing facile manipulation of spectra, by hand annotation, reanalysis, and access to all procedures. We also described the use of Sonar MS/MS, a novel, rapid search engine requiring 40 MB RAM per process for searches against a genomic or EST database translated in all six reading frames. RADARS reduces the cost of analysis by its efficient algorithms: Sonar MS/MS can identifiy proteins without accurate knowledge of the parent ion mass and without protein tags. Statistical scoring methods provide close-to-expert accuracy and brings robust data analysis to the non-expert user.

  11. Performance of popular open source databases for HEP related computing problems

    International Nuclear Information System (INIS)

    Kovalskyi, D; Sfiligoi, I; Wuerthwein, F; Yagil, A

    2014-01-01

    Databases are used in many software components of HEP computing, from monitoring and job scheduling to data storage and processing. It is not always clear at the beginning of a project if a problem can be handled by a single server, or if one needs to plan for a multi-server solution. Before a scalable solution is adopted, it helps to know how well it performs in a single server case to avoid situations when a multi-server solution is adopted mostly due to sub-optimal performance per node. This paper presents comparison benchmarks of popular open source database management systems. As a test application we use a user job monitoring system based on the Glidein workflow management system used in the CMS Collaboration.

  12. Replication and load balancing strategy of STAR's relational database management system (RDBM)

    Energy Technology Data Exchange (ETDEWEB)

    DePhillips, M; Lauret, J; Kopytine, M [Brookhaven National Laboratory, Upton NY 11973 (United States); Kent State University, Kent Ohio 44242 (United States)], E-mail: jlauret@bnl.gov

    2008-07-15

    Database demand resulting from offline analysis and production of data at the STAR experiment at Brookhaven National Laboratory's Relativistic Heavy-Ion Collider has steadily increased over the last six years of data taking activities. With each year, STAR more than doubles the number of events recorded with an anticipation of reaching a billion event capabilities as early as next year. The challenges faced from producing and analyzing this magnitude of events in parallel have raised issues with regard to the distribution of calibrations and geometry data, via databases, to STAR's growing global collaboration. Rapid distribution, availability, ensured synchronization and load balancing have become paramount considerations. Both conventional technology and novel approaches are used in parallel to realize these goals. This paper discusses how STAR uses load balancing to optimize database usage. It discusses distribution methods via MySQL master slave replication; the synchronization issues that arise from this type of distribution and solutions, mostly homegrown, put forth to overcome these issues. A novel approach toward load balancing between slave nodes that assists in maintaining a high availability rate for a veracious community is discussed in detail. This load balancing addresses both, pools of nodes internal to a given location, as well as balancing the load for remote users between different available locations. Challenges, trade-offs, rationale for decisions and paths forward will be discussed in all cases, presenting a solid production environment with a vision for scalable growth.

  13. Replication and load balancing strategy of STAR's relational database management system (RDBM)

    International Nuclear Information System (INIS)

    DePhillips, M; Lauret, J; Kopytine, M

    2008-01-01

    Database demand resulting from offline analysis and production of data at the STAR experiment at Brookhaven National Laboratory's Relativistic Heavy-Ion Collider has steadily increased over the last six years of data taking activities. With each year, STAR more than doubles the number of events recorded with an anticipation of reaching a billion event capabilities as early as next year. The challenges faced from producing and analyzing this magnitude of events in parallel have raised issues with regard to the distribution of calibrations and geometry data, via databases, to STAR's growing global collaboration. Rapid distribution, availability, ensured synchronization and load balancing have become paramount considerations. Both conventional technology and novel approaches are used in parallel to realize these goals. This paper discusses how STAR uses load balancing to optimize database usage. It discusses distribution methods via MySQL master slave replication; the synchronization issues that arise from this type of distribution and solutions, mostly homegrown, put forth to overcome these issues. A novel approach toward load balancing between slave nodes that assists in maintaining a high availability rate for a veracious community is discussed in detail. This load balancing addresses both, pools of nodes internal to a given location, as well as balancing the load for remote users between different available locations. Challenges, trade-offs, rationale for decisions and paths forward will be discussed in all cases, presenting a solid production environment with a vision for scalable growth

  14. Literature Review and Database of Relations Between Salinity and Aquatic Biota: Applications to Bowdoin National Wildlife Refuge, Montana

    Science.gov (United States)

    Gleason, Robert A.; Tangen, Brian A.; Laubhan, Murray K.; Finocchiaro, Raymond G.; Stamm, John F.

    2009-01-01

    Long-term accumulation of salts in wetlands at Bowdoin National Wildlife Refuge (NWR), Mont., has raised concern among wetland managers that increasing salinity may threaten plant and invertebrate communities that provide important habitat and food resources for migratory waterfowl. Currently, the U.S. Fish and Wildlife Service (USFWS) is evaluating various water management strategies to help maintain suitable ranges of salinity to sustain plant and invertebrate resources of importance to wildlife. To support this evaluation, the USFWS requested that the U.S. Geological Survey (USGS) provide information on salinity ranges of water and soil for common plants and invertebrates on Bowdoin NWR lands. To address this need, we conducted a search of the literature on occurrences of plants and invertebrates in relation to salinity and pH of the water and soil. The compiled literature was used to (1) provide a general overview of salinity concepts, (2) document published tolerances and adaptations of biota to salinity, (3) develop databases that the USFWS can use to summarize the range of reported salinity values associated with plant and invertebrate taxa, and (4) perform database summaries that describe reported salinity ranges associated with plants and invertebrates at Bowdoin NWR. The purpose of this report is to synthesize information to facilitate a better understanding of the ecological relations between salinity and flora and fauna when developing wetland management strategies. A primary focus of this report is to provide information to help evaluate and address salinity issues at Bowdoin NWR; however, the accompanying databases, as well as concepts and information discussed, are applicable to other areas or refuges. The accompanying databases include salinity values reported for 411 plant taxa and 330 invertebrate taxa. The databases are available in Microsoft Excel version 2007 (http://pubs.usgs.gov/sir/2009/5098/downloads/databases_21april2009.xls) and contain

  15. Development of the ECODAB into a relational database for Escherichia coli O-antigens and other bacterial polysaccharides.

    Science.gov (United States)

    Rojas-Macias, Miguel A; Ståhle, Jonas; Lütteke, Thomas; Widmalm, Göran

    2015-03-01

    Escherichia coli O-antigen database (ECODAB) is a web-based application to support the collection of E. coli O-antigen structures, polymerase and flippase amino acid sequences, NMR chemical shift data of O-antigens as well as information on glycosyltransferases (GTs) involved in the assembly of O-antigen polysaccharides. The database content has been compiled from scientific literature. Furthermore, the system has evolved from being a repository to one that can be used for generating novel data on its own. GT specificity is suggested through sequence comparison with GTs whose function is known. The migration of ECODAB to a relational database has allowed the automation of all processes to update, retrieve and present information, thereby, endowing the system with greater flexibility and improved overall performance. ECODAB is freely available at http://www.casper.organ.su.se/ECODAB/. Currently, data on 169 E. coli unique O-antigen entries and 338 GTs is covered. Moreover, the scope of the database has been extended so that polysaccharide structure and related information from other bacteria subsequently can be added, for example, from Streptococcus pneumoniae. © The Author 2014. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  16. RaMP: A Comprehensive Relational Database of Metabolomics Pathways for Pathway Enrichment Analysis of Genes and Metabolites.

    Science.gov (United States)

    Zhang, Bofei; Hu, Senyang; Baskin, Elizabeth; Patt, Andrew; Siddiqui, Jalal K; Mathé, Ewy A

    2018-02-22

    The value of metabolomics in translational research is undeniable, and metabolomics data are increasingly generated in large cohorts. The functional interpretation of disease-associated metabolites though is difficult, and the biological mechanisms that underlie cell type or disease-specific metabolomics profiles are oftentimes unknown. To help fully exploit metabolomics data and to aid in its interpretation, analysis of metabolomics data with other complementary omics data, including transcriptomics, is helpful. To facilitate such analyses at a pathway level, we have developed RaMP (Relational database of Metabolomics Pathways), which combines biological pathways from the Kyoto Encyclopedia of Genes and Genomes (KEGG), Reactome, WikiPathways, and the Human Metabolome DataBase (HMDB). To the best of our knowledge, an off-the-shelf, public database that maps genes and metabolites to biochemical/disease pathways and can readily be integrated into other existing software is currently lacking. For consistent and comprehensive analysis, RaMP enables batch and complex queries (e.g., list all metabolites involved in glycolysis and lung cancer), can readily be integrated into pathway analysis tools, and supports pathway overrepresentation analysis given a list of genes and/or metabolites of interest. For usability, we have developed a RaMP R package (https://github.com/Mathelab/RaMP-DB), including a user-friendly RShiny web application, that supports basic simple and batch queries, pathway overrepresentation analysis given a list of genes or metabolites of interest, and network visualization of gene-metabolite relationships. The package also includes the raw database file (mysql dump), thereby providing a stand-alone downloadable framework for public use and integration with other tools. In addition, the Python code needed to recreate the database on another system is also publicly available (https://github.com/Mathelab/RaMP-BackEnd). Updates for databases in RaMP will be

  17. Tandem mass spectrometry of human tryptic blood peptides calculated by a statistical algorithm and captured by a relational database with exploration by a general statistical analysis system.

    Science.gov (United States)

    Bowden, Peter; Beavis, Ron; Marshall, John

    2009-11-02

    A goodness of fit test may be used to assign tandem mass spectra of peptides to amino acid sequences and to directly calculate the expected probability of mis-identification. The product of the peptide expectation values directly yields the probability that the parent protein has been mis-identified. A relational database could capture the mass spectral data, the best fit results, and permit subsequent calculations by a general statistical analysis system. The many files of the Hupo blood protein data correlated by X!TANDEM against the proteins of ENSEMBL were collected into a relational database. A redundant set of 247,077 proteins and peptides were correlated by X!TANDEM, and that was collapsed to a set of 34,956 peptides from 13,379 distinct proteins. About 6875 distinct proteins were only represented by a single distinct peptide, 2866 proteins showed 2 distinct peptides, and 3454 proteins showed at least three distinct peptides by X!TANDEM. More than 99% of the peptides were associated with proteins that had cumulative expectation values, i.e. probability of false positive identification, of one in one hundred or less. The distribution of peptides per protein from X!TANDEM was significantly different than those expected from random assignment of peptides.

  18. Framing, agenda setting, and disease phobia of AIDS-related coverage in the South Korean mass media.

    Science.gov (United States)

    Jung, Minsoo

    2013-01-01

    There has been little research on the concrete role of the press in discourses on AIDS. This study investigated the AIDS discourses created by the major media. In particular, from the perspective of the agenda-setting theory, it examines differences in the framing of AIDS-related news depending on the political orientation and news sources of the press. This study analyzed the thematic frames and news sources implied by AIDS-related coverage. The 2 major media representing conservatism and progressivism were selected as the objects of analysis. As for the search engine for content analysis, the Korean Integrated Newspaper Database System was used, and 151 articles containing "AIDS" or "HIV" over 5 years from January 2005 to December 2010 were analyzed. According to the results of the analysis, there were the 6 following frames: aid/support, accident, human rights, risk, prevention, and biomedicine. Whereas the conservative press in South Korea continued to frame AIDS in the traditional way, the progressive press tended relatively more often to attempt new agenda setting, from the perspective of human rights and inequality. However, both newspaper companies tended mostly to select experts as the sources of AIDS news, thus continuing to exclude infectees and civil and society organizations.

  19. Sting_RDB: a relational database of structural parameters for protein analysis with support for data warehousing and data mining.

    Science.gov (United States)

    Oliveira, S R M; Almeida, G V; Souza, K R R; Rodrigues, D N; Kuser-Falcão, P R; Yamagishi, M E B; Santos, E H; Vieira, F D; Jardine, J G; Neshich, G

    2007-10-05

    An effective strategy for managing protein databases is to provide mechanisms to transform raw data into consistent, accurate and reliable information. Such mechanisms will greatly reduce operational inefficiencies and improve one's ability to better handle scientific objectives and interpret the research results. To achieve this challenging goal for the STING project, we introduce Sting_RDB, a relational database of structural parameters for protein analysis with support for data warehousing and data mining. In this article, we highlight the main features of Sting_RDB and show how a user can explore it for efficient and biologically relevant queries. Considering its importance for molecular biologists, effort has been made to advance Sting_RDB toward data quality assessment. To the best of our knowledge, Sting_RDB is one of the most comprehensive data repositories for protein analysis, now also capable of providing its users with a data quality indicator. This paper differs from our previous study in many aspects. First, we introduce Sting_RDB, a relational database with mechanisms for efficient and relevant queries using SQL. Sting_rdb evolved from the earlier, text (flat file)-based database, in which data consistency and integrity was not guaranteed. Second, we provide support for data warehousing and mining. Third, the data quality indicator was introduced. Finally and probably most importantly, complex queries that could not be posed on a text-based database, are now easily implemented. Further details are accessible at the Sting_RDB demo web page: http://www.cbi.cnptia.embrapa.br/StingRDB.

  20. Mathematics for Databases

    NARCIS (Netherlands)

    ir. Sander van Laar

    2007-01-01

    A formal description of a database consists of the description of the relations (tables) of the database together with the constraints that must hold on the database. Furthermore the contents of a database can be retrieved using queries. These constraints and queries for databases can very well be

  1. Databases and their application

    NARCIS (Netherlands)

    Grimm, E.C.; Bradshaw, R.H.W; Brewer, S.; Flantua, S.; Giesecke, T.; Lézine, A.M.; Takahara, H.; Williams, J.W.,Jr; Elias, S.A.; Mock, C.J.

    2013-01-01

    During the past 20 years, several pollen database cooperatives have been established. These databases are now constituent databases of the Neotoma Paleoecology Database, a public domain, multiproxy, relational database designed for Quaternary-Pliocene fossil data and modern surface samples. The

  2. CFTR-France, a national relational patient database for sharing genetic and phenotypic data associated with rare CFTR variants.

    Science.gov (United States)

    Claustres, Mireille; Thèze, Corinne; des Georges, Marie; Baux, David; Girodon, Emmanuelle; Bienvenu, Thierry; Audrezet, Marie-Pierre; Dugueperoux, Ingrid; Férec, Claude; Lalau, Guy; Pagin, Adrien; Kitzis, Alain; Thoreau, Vincent; Gaston, Véronique; Bieth, Eric; Malinge, Marie-Claire; Reboul, Marie-Pierre; Fergelot, Patricia; Lemonnier, Lydie; Mekki, Chadia; Fanen, Pascale; Bergougnoux, Anne; Sasorith, Souphatta; Raynal, Caroline; Bareil, Corinne

    2017-10-01

    Most of the 2,000 variants identified in the CFTR (cystic fibrosis transmembrane regulator) gene are rare or private. Their interpretation is hampered by the lack of available data and resources, making patient care and genetic counseling challenging. We developed a patient-based database dedicated to the annotations of rare CFTR variants in the context of their cis- and trans-allelic combinations. Based on almost 30 years of experience of CFTR testing, CFTR-France (https://cftr.iurc.montp.inserm.fr/cftr) currently compiles 16,819 variant records from 4,615 individuals with cystic fibrosis (CF) or CFTR-RD (related disorders), fetuses with ultrasound bowel anomalies, newborns awaiting clinical diagnosis, and asymptomatic compound heterozygotes. For each of the 736 different variants reported in the database, patient characteristics and genetic information (other variations in cis or in trans) have been thoroughly checked by a dedicated curator. Combining updated clinical, epidemiological, in silico, or in vitro functional data helps to the interpretation of unclassified and the reassessment of misclassified variants. This comprehensive CFTR database is now an invaluable tool for diagnostic laboratories gathering information on rare variants, especially in the context of genetic counseling, prenatal and preimplantation genetic diagnosis. CFTR-France is thus highly complementary to the international database CFTR2 focused so far on the most common CF-causing alleles. © 2017 Wiley Periodicals, Inc.

  3. Analysis of TRMM-LIS Lightning and Related Microphysics Using a Cell-Scale Database

    Science.gov (United States)

    Leroy, Anita; Petersen, Walter A.

    2010-01-01

    Previous studies of tropical lightning activity using Tropical Rainfall Measurement Mission (TRMM) Lightning Imaging Sensor (LIS) data performed analyses of lightning behavior over mesoscale "feature" scales or over uniform grids. In order to study lightning and the governing ice microphysics intrinsic to thunderstorms at a more process-specific scale (i.e., the scale over which electrification processes and lightning occur in a "unit" thunderstorm), a new convective cell-scale database was developed by analyzing and refining the University of Utah's Precipitation Features database and retaining precipitation data parameters computed from the TRMM precipitation radar (PR), microwave imager (TMI) and LIS instruments. The resulting data base was to conduct a limited four-year study of tropical continental convection occurring over the Amazon Basin, Congo, Maritime Continent and the western Pacific Ocean. The analysis reveals expected strong correlations between lightning flash counts per cell and ice proxies, such as ice water path, minimum and average 85GHz brightness temperatures, and 18dBz echo top heights above the freezing level in all regimes, as well as regime-specific relationships between lighting flash counts and PR-derived surface rainfall rates. Additionally, radar CFADs were used to partition the 3D structure of cells in each regime at different flash counts. The resulting cell-scale analyses are compared to previous mesoscale feature and gridded studies wherever possible.

  4. Data model and relational database design for the New Jersey Water-Transfer Data System (NJWaTr)

    Science.gov (United States)

    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.

  5. Legacy2Drupal - Conversion of an existing oceanographic relational database to a semantically enabled Drupal content management system

    Science.gov (United States)

    Maffei, A. R.; Chandler, C. L.; Work, T.; Allen, J.; Groman, R. C.; Fox, P. A.

    2009-12-01

    Content Management Systems (CMSs) provide powerful features that can be of use to oceanographic (and other geo-science) data managers. However, in many instances, geo-science data management offices have previously designed customized schemas for their metadata. The WHOI Ocean Informatics initiative and the NSF funded Biological Chemical and Biological Data Management Office (BCO-DMO) have jointly sponsored a project to port an existing, relational database containing oceanographic metadata, along with an existing interface coded in Cold Fusion middleware, to a Drupal6 Content Management System. The goal was to translate all the existing database tables, input forms, website reports, and other features present in the existing system to employ Drupal CMS features. The replacement features include Drupal content types, CCK node-reference fields, themes, RDB, SPARQL, workflow, and a number of other supporting modules. Strategic use of some Drupal6 CMS features enables three separate but complementary interfaces that provide access to oceanographic research metadata via the MySQL database: 1) a Drupal6-powered front-end; 2) a standard SQL port (used to provide a Mapserver interface to the metadata and data; and 3) a SPARQL port (feeding a new faceted search capability being developed). Future plans include the creation of science ontologies, by scientist/technologist teams, that will drive semantically-enabled faceted search capabilities planned for the site. Incorporation of semantic technologies included in the future Drupal 7 core release is also anticipated. Using a public domain CMS as opposed to proprietary middleware, and taking advantage of the many features of Drupal 6 that are designed to support semantically-enabled interfaces will help prepare the BCO-DMO database for interoperability with other ecosystem databases.

  6. Improving the analysis, storage and sharing of neuroimaging data using relational databases and distributed computing.

    Science.gov (United States)

    Hasson, Uri; Skipper, Jeremy I; Wilde, Michael J; Nusbaum, Howard C; Small, Steven L

    2008-01-15

    The increasingly complex research questions addressed by neuroimaging research impose substantial demands on computational infrastructures. These infrastructures need to support management of massive amounts of data in a way that affords rapid and precise data analysis, to allow collaborative research, and to achieve these aims securely and with minimum management overhead. Here we present an approach that overcomes many current limitations in data analysis and data sharing. This approach is based on open source database management systems that support complex data queries as an integral part of data analysis, flexible data sharing, and parallel and distributed data processing using cluster computing and Grid computing resources. We assess the strengths of these approaches as compared to current frameworks based on storage of binary or text files. We then describe in detail the implementation of such a system and provide a concrete description of how it was used to enable a complex analysis of fMRI time series data.

  7. Development of reliability database for safety-related I and C component based on operating experience of KSNP

    International Nuclear Information System (INIS)

    Jang, S. C.; Han, S. H.; Min, K. R.

    2001-01-01

    Reliability database for safety-related I and C components has been developed, based on domestic operating experience of total 8.63 years from four units-Yonggwang Units 3 and 4, and Ulchin Units 3 and 4. This plant-specific data of safety-related I and C components has compared with operating experience for CE-supplied plants in U.S.A. As a results, we found that on the whole the domestic reliability data was similar to CE-supplied plants in USA, through lots of failures occurred early in the commercial operation were included in our analyses without percolation

  8. Management of radiological related equipments. Creating the equipment management database and analysis of the repair and maintenance records

    International Nuclear Information System (INIS)

    Eguchi, Megumu; Taguchi, Keiichi; Oota, Takashi; Kajiwara, Hiroki; Ono, Kiyotune; Hagio, Kiyofumi; Uesugi, Ekizo; Kajishima, Tetuo; Ueda, Kenji

    2002-01-01

    In 1997, we established the committee of equipments maintenance and management in our department. We designed the database in order to classify and register all the radiological related equipments using Microsoft Access. The management of conditions and cost of each equipment has become easier, by keeping and recording the database in the equipments management ledger and by filing the history of repairs or maintenances occurred to modalities. We then accounted numbers, cost of repairs and downtimes from the data of the repair and maintenance records for four years, and we reexamined the causal analysis of failures and the contents of the regular maintenance for CT and MRI equipments that had shown the higher numbers of repairs. Consequently, we have found the improvement of registration method of the data and the more economical way to use of the cost of repair. (author)

  9. Experiment Databases

    Science.gov (United States)

    Vanschoren, Joaquin; Blockeel, Hendrik

    Next to running machine learning algorithms based on inductive queries, much can be learned by immediately querying the combined results of many prior studies. Indeed, all around the globe, thousands of machine learning experiments are being executed on a daily basis, generating a constant stream of empirical information on machine learning techniques. While the information contained in these experiments might have many uses beyond their original intent, results are typically described very concisely in papers and discarded afterwards. If we properly store and organize these results in central databases, they can be immediately reused for further analysis, thus boosting future research. In this chapter, we propose the use of experiment databases: databases designed to collect all the necessary details of these experiments, and to intelligently organize them in online repositories to enable fast and thorough analysis of a myriad of collected results. They constitute an additional, queriable source of empirical meta-data based on principled descriptions of algorithm executions, without reimplementing the algorithms in an inductive database. As such, they engender a very dynamic, collaborative approach to experimentation, in which experiments can be freely shared, linked together, and immediately reused by researchers all over the world. They can be set up for personal use, to share results within a lab or to create open, community-wide repositories. Here, we provide a high-level overview of their design, and use an existing experiment database to answer various interesting research questions about machine learning algorithms and to verify a number of recent studies.

  10. [Socioeconomic status, toothbrushing frequency, and health-related behaviors in adolescents: an analysis using the PeNSE database].

    Science.gov (United States)

    Vettore, Mario Vianna; Moysés, Samuel Jorge; Sardinha, Luciana Monteiro Vasconcelos; Iser, Betine Pinto Moehlecke

    2012-01-01

    This study investigated the association between oral and general health-related behaviors and socioeconomic status, and the relationship between health-related behaviors and toothbrushing among adolescents. The database used here was the National School-Based Health Survey (PeNSE), a cross-sectional population-based study in 2009 with students from 27 Brazilian State capitals. Socio-demographic and health-related behavior data were collected. The survey included 49,189 adolescents (47.5% males), the majority of whom were 14 years of age and enrolled in public schools. The associations between toothbrushing frequency and other health-related behaviors and socioeconomic status varied between boys and girls. Associations were observed between health-related habits and toothbrushing frequency in both sexes, but with variations according to socioeconomic status. Planning health promotion interventions for adolescents should take their individual characteristics and family and social context into account.

  11. Dose Relations between Goal Setting, Theory-Based Correlates of Goal Setting and Increases in Physical Activity during a Workplace Trial

    Science.gov (United States)

    Dishman, Rod K.; Vandenberg, Robert J.; Motl, Robert W.; Wilson, Mark G.; DeJoy, David M.

    2010-01-01

    The effectiveness of an intervention depends on its dose and on moderators of dose, which usually are not studied. The purpose of the study is to determine whether goal setting and theory-based moderators of goal setting had dose relations with increases in goal-related physical activity during a successful workplace intervention. A…

  12. Pathology report data extraction from relational database using R, with extraction from reports on melanoma of skin as an example.

    Science.gov (United States)

    Ye, Jay J

    2016-01-01

    Different methods have been described for data extraction from pathology reports with varying degrees of success. Here a technique for directly extracting data from relational database is described. Our department uses synoptic reports modified from College of American Pathologists (CAP) Cancer Protocol Templates to report most of our cancer diagnoses. Choosing the melanoma of skin synoptic report as an example, R scripting language extended with RODBC package was used to query the pathology information system database. Reports containing melanoma of skin synoptic report in the past 4 and a half years were retrieved and individual data elements were extracted. Using the retrieved list of the cases, the database was queried a second time to retrieve/extract the lymph node staging information in the subsequent reports from the same patients. 426 synoptic reports corresponding to unique lesions of melanoma of skin were retrieved, and data elements of interest were extracted into an R data frame. The distribution of Breslow depth of melanomas grouped by year is used as an example of intra-report data extraction and analysis. When the new pN staging information was present in the subsequent reports, 82% (77/94) was precisely retrieved (pN0, pN1, pN2 and pN3). Additional 15% (14/94) was retrieved with certain ambiguity (positive or knowing there was an update). The specificity was 100% for both. The relationship between Breslow depth and lymph node status was graphed as an example of lesion-specific multi-report data extraction and analysis. R extended with RODBC package is a simple and versatile approach well-suited for the above tasks. The success or failure of the retrieval and extraction depended largely on whether the reports were formatted and whether the contents of the elements were consistently phrased. This approach can be easily modified and adopted for other pathology information systems that use relational database for data management.

  13. Yield in almond is related more to the abundance of flowers than the relative number of flowers that set fruit

    Directory of Open Access Journals (Sweden)

    Sergio Tombesi

    2016-11-01

    Full Text Available Almond tree yield is a function of the number of flowers on a tree and the percentage of flowers that set fruit. Almonds are borne on spurs (short proleptic shoots that can have both leaves and flowers. Almond tree spur dynamics research has documented that previous year spur leaf area is a predictive parameter for year-to-year spur survival, spur flowering and to a lesser extent spur fruiting, while previous year fruit bearing has a negative impact on subsequent year flowering. However, a question remained about whether yields are more dependent on flower numbers or relative fruit set of the flowers that are present. The aim of the present work was to compare the importance of flower abundance with that of relative fruit set in determining the productivity of a population of tagged spurs in almond trees over a 6-year period. Overall tree yield among years was more sensitive to total number of flowers on a tree rather than relative fruit set. These results emphasize the importance of maintaining large populations of healthy flowering spurs for sustained high production in almond orchards.

  14. Pharmacy Students’ Preference for Using Mobile Devices in a Clinical Setting for Practice-Related Tasks

    Science.gov (United States)

    Hastings, Justine F.; Bryant, Jennifer E.

    2015-01-01

    Objective. To examine pharmacy students’ ownership of, use of, and preference for using a mobile device in a practice setting. Methods. Eighty-one pharmacy students were recruited and completed a pretest that collected information about their demographics and mobile devices and also had them rank the iPhone, iPad mini, and iPad for preferred use in a pharmacy practice setting. Students used the 3 devices to perform pharmacy practice-related tasks and then completed a posttest to again rank the devices for preferred use in a pharmacy practice setting. Results. The iPhone was the most commonly owned mobile device (59.3% of students), and the iPad mini was the least commonly owned (18.5%). About 70% of the students used their mobile devices at least once a week in a pharmacy practice setting. The iPhone was the most commonly used device in a practice setting (46.9% of students), and the iPod Touch was the least commonly used device (1.2%). The iPad mini was the most preferred device for use in a pharmacy practice setting prior to performing pharmacy practice-related tasks (49.4% of students), and was preferred by significantly more students after performing the tasks (70.4%). Conclusion. Pharmacy students commonly use their mobile devices in pharmacy practice settings and most selected the iPad mini as the preferred device for use in a practice setting even though it was the device owned by the fewest students. PMID:25861103

  15. Pharmacy students' preference for using mobile devices in a clinical setting for practice-related tasks.

    Science.gov (United States)

    Richard, Craig A H; Hastings, Justine F; Bryant, Jennifer E

    2015-03-25

    To examine pharmacy students' ownership of, use of, and preference for using a mobile device in a practice setting. Eighty-one pharmacy students were recruited and completed a pretest that collected information about their demographics and mobile devices and also had them rank the iPhone, iPad mini, and iPad for preferred use in a pharmacy practice setting. Students used the 3 devices to perform pharmacy practice-related tasks and then completed a posttest to again rank the devices for preferred use in a pharmacy practice setting. The iPhone was the most commonly owned mobile device (59.3% of students), and the iPad mini was the least commonly owned (18.5%). About 70% of the students used their mobile devices at least once a week in a pharmacy practice setting. The iPhone was the most commonly used device in a practice setting (46.9% of students), and the iPod Touch was the least commonly used device (1.2%). The iPad mini was the most preferred device for use in a pharmacy practice setting prior to performing pharmacy practice-related tasks (49.4% of students), and was preferred by significantly more students after performing the tasks (70.4%). Pharmacy students commonly use their mobile devices in pharmacy practice settings and most selected the iPad mini as the preferred device for use in a practice setting even though it was the device owned by the fewest students.

  16. Career Pathways for Related Service Paratherapists Working in Early Intervention and Other Education Settings.

    Science.gov (United States)

    Longhurst, Thomas M.

    1997-01-01

    Discusses issues in personnel training practices for paraprofessionals providing related services in early intervention and education settings. The term paratherapist is used to refer to paraprofessionals working under the supervision of professionals in physical therapy, occupational therapy, and speech-language pathology. Presents a philosophy…

  17. Stackel spaces of an electrovacuum with isotropic complete sets. Formulation of problem and basic relations

    International Nuclear Information System (INIS)

    Bagrov, V.G.; Evseevich, A.A.; Obukhov, V.V.; Osetrin, K.E.

    1987-01-01

    The authors consider the problem of the classification of the Stackel spaces of the electrovacuum with isotropic complete sets. The metrics of the spaces are represented in a form that is convenient for their investigation. We obtain necessary relations for the construction of the field equations

  18. Contingent Attentional Capture by Top-Down Control Settings: Converging Evidence from Event-Related Potentials

    Science.gov (United States)

    Lien, Mei-Ching; Ruthruff, Eric; Goodin, Zachary; Remington, Roger W.

    2008-01-01

    Theories of attentional control are divided over whether the capture of spatial attention depends primarily on stimulus salience or is contingent on attentional control settings induced by task demands. The authors addressed this issue using the N2-posterior-contralateral (N2pc) effect, a component of the event-related brain potential thought to…

  19. Function of One Regular Separable Relation Set Decided for the Minimal Covering in Multiple Valued Logic

    Directory of Open Access Journals (Sweden)

    Liu Yu Zhen

    2016-01-01

    Full Text Available Multiple-valued logic is an important branch of the computer science and technology. Multiple-valued logic studies the theory, multiple-valued circuit & multiple-valued system, and the applications of multiple-valued logic included.In the theory of multiple-valued logic, one primary and important problem is the completeness of function sets, which can be solved depending on the decision for all the precomplete sets(also called maximal closed sets of K-valued function sets noted by PK*, and another is the decision for Sheffer function, which can be totally solved by picking out all of the minimal covering of the precomplete sets. In the function structure theory of multi-logic, decision on Sheffer function is an important role. It contains structure and decision of full multi-logic and partial multi-logic. Its decision is closely related to decision of completeness of function which can be done by deciding the minimal covering of full multi-logic and partial-logic. By theory of completeness of partial multi-logic, we prove that function of one regular separable relation is not minimal covering of PK* under the condition of m = 2, σ = e.

  20. Discovering biomedical semantic relations in PubMed queries for information retrieval and database curation.

    Science.gov (United States)

    Huang, Chung-Chi; Lu, Zhiyong

    2016-01-01

    Identifying relevant papers from the literature is a common task in biocuration. Most current biomedical literature search systems primarily rely on matching user keywords. Semantic search, on the other hand, seeks to improve search accuracy by understanding the entities and contextual relations in user keywords. However, past research has mostly focused on semantically identifying biological entities (e.g. chemicals, diseases and genes) with little effort on discovering semantic relations. In this work, we aim to discover biomedical semantic relations in PubMed queries in an automated and unsupervised fashion. Specifically, we focus on extracting and understanding the contextual information (or context patterns) that is used by PubMed users to represent semantic relations between entities such as 'CHEMICAL-1 compared to CHEMICAL-2' With the advances in automatic named entity recognition, we first tag entities in PubMed queries and then use tagged entities as knowledge to recognize pattern semantics. More specifically, we transform PubMed queries into context patterns involving participating entities, which are subsequently projected to latent topics via latent semantic analysis (LSA) to avoid the data sparseness and specificity issues. Finally, we mine semantically similar contextual patterns or semantic relations based on LSA topic distributions. Our two separate evaluation experiments of chemical-chemical (CC) and chemical-disease (CD) relations show that the proposed approach significantly outperforms a baseline method, which simply measures pattern semantics by similarity in participating entities. The highest performance achieved by our approach is nearly 0.9 and 0.85 respectively for the CC and CD task when compared against the ground truth in terms of normalized discounted cumulative gain (nDCG), a standard measure of ranking quality. These results suggest that our approach can effectively identify and return related semantic patterns in a ranked order

  1. Mechanism-based biomarker gene sets for glutathione depletion-related hepatotoxicity in rats

    International Nuclear Information System (INIS)

    Gao Weihua; Mizukawa, Yumiko; Nakatsu, Noriyuki; Minowa, Yosuke; Yamada, Hiroshi; Ohno, Yasuo; Urushidani, Tetsuro

    2010-01-01

    Chemical-induced glutathione depletion is thought to be caused by two types of toxicological mechanisms: PHO-type glutathione depletion [glutathione conjugated with chemicals such as phorone (PHO) or diethyl maleate (DEM)], and BSO-type glutathione depletion [i.e., glutathione synthesis inhibited by chemicals such as L-buthionine-sulfoximine (BSO)]. In order to identify mechanism-based biomarker gene sets for glutathione depletion in rat liver, male SD rats were treated with various chemicals including PHO (40, 120 and 400 mg/kg), DEM (80, 240 and 800 mg/kg), BSO (150, 450 and 1500 mg/kg), and bromobenzene (BBZ, 10, 100 and 300 mg/kg). Liver samples were taken 3, 6, 9 and 24 h after administration and examined for hepatic glutathione content, physiological and pathological changes, and gene expression changes using Affymetrix GeneChip Arrays. To identify differentially expressed probe sets in response to glutathione depletion, we focused on the following two courses of events for the two types of mechanisms of glutathione depletion: a) gene expression changes occurring simultaneously in response to glutathione depletion, and b) gene expression changes after glutathione was depleted. The gene expression profiles of the identified probe sets for the two types of glutathione depletion differed markedly at times during and after glutathione depletion, whereas Srxn1 was markedly increased for both types as glutathione was depleted, suggesting that Srxn1 is a key molecule in oxidative stress related to glutathione. The extracted probe sets were refined and verified using various compounds including 13 additional positive or negative compounds, and they established two useful marker sets. One contained three probe sets (Akr7a3, Trib3 and Gstp1) that could detect conjugation-type glutathione depletors any time within 24 h after dosing, and the other contained 14 probe sets that could detect glutathione depletors by any mechanism. These two sets, with appropriate scoring

  2. NoSQL databases

    OpenAIRE

    Mrozek, Jakub

    2012-01-01

    This thesis deals with database systems referred to as NoSQL databases. In the second chapter, I explain basic terms and the theory of database systems. A short explanation is dedicated to database systems based on the relational data model and the SQL standardized query language. Chapter Three explains the concept and history of the NoSQL databases, and also presents database models, major features and the use of NoSQL databases in comparison with traditional database systems. In the fourth ...

  3. Analisis Performansi Database Ditinjau dari Aspek Optimasi Query dan Desain Model Data Relational pada DAS dan RAID

    OpenAIRE

    Lubis, Juanda Hakim

    2015-01-01

    The amount of data that is stored in magnetic disk (floppy disk, harddisk, etc) increases 100% each year for each department for each company so an effort to maintain a database system to be optimal is needed. Designing a database is the initial step when creating a system with an optimal database performance. However, just designing the database is not enough to increase the performance of the database.One of the ways is to increase the speed of data transaction by increaseing...

  4. The Danish Fracture Database can monitor quality of fracture-related surgery, surgeons' experience level and extent of supervision

    DEFF Research Database (Denmark)

    Andersen, M. J.; Gromov, K.; Brix, M.

    2014-01-01

    INTRODUCTION: The importance of supervision and of surgeons' level of experience in relation to patient outcome have been demonstrated in both hip fracture and arthroplasty surgery. The aim of this study was to describe the surgeons' experience level and the extent of supervision for: 1) fracture-related...... surgery in general; 2) the three most frequent primary operations and reoperations; and 3) primary operations during and outside regular working hours. MATERIAL AND METHODS: A total of 9,767 surgical procedures were identified from the Danish Fracture Database (DFDB). Procedures were grouped based...... procedures by junior residents grew from 30% during to 40% (p related surgery. The extent of supervision was generally high; however, a third of the primary procedures performed by junior...

  5. Structure alerts for carcinogenicity, and the Salmonella assay system: a novel insight through the chemical relational databases technology.

    Science.gov (United States)

    Benigni, Romualdo; Bossa, Cecilia

    2008-01-01

    In the past decades, chemical carcinogenicity has been the object of mechanistic studies that have been translated into valuable experimental (e.g., the Salmonella assays system) and theoretical (e.g., compilations of structure alerts for chemical carcinogenicity) models. These findings remain the basis of the science and regulation of mutagens and carcinogens. Recent advances in the organization and treatment of large databases consisting of both biological and chemical information nowadays allows for a much easier and more refined view of data. This paper reviews recent analyses on the predictive performance of various lists of structure alerts, including a new compilation of alerts that combines previous work in an optimized form for computer implementation. The revised compilation is part of the Toxtree 1.50 software (freely available from the European Chemicals Bureau website). The use of structural alerts for the chemical biological profiling of a large database of Salmonella mutagenicity results is also reported. Together with being a repository of the science on the chemical biological interactions at the basis of chemical carcinogenicity, the SAs have a crucial role in practical applications for risk assessment, for: (a) description of sets of chemicals; (b) preliminary hazard characterization; (c) formation of categories for e.g., regulatory purposes; (d) generation of subsets of congeneric chemicals to be analyzed subsequently with QSAR methods; (e) priority setting. An important aspect of SAs as predictive toxicity tools is that they derive directly from mechanistic knowledge. The crucial role of mechanistic knowledge in the process of applying (Q)SAR considerations to risk assessment should be strongly emphasized. Mechanistic knowledge provides a ground for interaction and dialogue between model developers, toxicologists and regulators, and permits the integration of the (Q)SAR results into a wider regulatory framework, where different types of

  6. Practices Regarding Rape-related Pregnancy in U.S. Abortion Care Settings.

    Science.gov (United States)

    Perry, Rachel; Murphy, Molly; Rankin, Kristin M; Cowett, Allison; Harwood, Bryna

    2016-01-01

    We aimed to explore current practices regarding screening for rape and response to disclosure of rape-related pregnancy in the abortion care setting. We performed a cross-sectional, nonprobability survey of U.S. abortion providers. Individuals were recruited in person and via emailed invitations to professional organization member lists. Questions in this web-based survey pertained to providers' practice setting, how they identify rape-related pregnancy, the availability of support services, and their experiences with law enforcement. Providers were asked their perceptions of barriers to care for women who report rape-related pregnancy. Surveys were completed by 279 providers (21% response rate). Most respondents were female (93.1%), and the majority were physicians in a clinical role (69.4%). One-half (49.8%) reported their practice screens for pregnancy resulting from rape, although fewer (34.8%) reported that screening is the method through which most patients with this history are identified. Most (80.6%) refer women with rape-related pregnancy to support services such as rape crisis centers. Relatively few (19.7%) have a specific protocol for care of women who report rape-related pregnancy. Clinics that screen were 79% more likely to have a protocol for care than centers that do not screen. Although the majority (67.4%) reported barriers to identification of women with rape-related pregnancy, fewer (33.3%) reported barriers to connecting them to support services. Practices for identifying and providing care to women with rape-related pregnancy in the abortion care setting are variable. Further research should address barriers to care provision, as well as identifying protocols for care. Copyright © 2016 Jacobs Institute of Women's Health. Published by Elsevier Inc. All rights reserved.

  7. The Make 2D-DB II package: conversion of federated two-dimensional gel electrophoresis databases into a relational format and interconnection of distributed databases.

    Science.gov (United States)

    Mostaguir, Khaled; Hoogland, Christine; Binz, Pierre-Alain; Appel, Ron D

    2003-08-01

    The Make 2D-DB tool has been previously developed to help build federated two-dimensional gel electrophoresis (2-DE) databases on one's own web site. The purpose of our work is to extend the strength of the first package and to build a more efficient environment. Such an environment should be able to fulfill the different needs and requirements arising from both the growing use of 2-DE techniques and the increasing amount of distributed experimental data.

  8. Feasibility of using the International Classification of Functioning, Disability and Health Core Set for evaluation of fall-related risk factors in acute rehabilitation settings.

    Science.gov (United States)

    Huang, Shih W; Lin, Li F; Chou, Lin C; Wu, Mei J; Liao, Chun D; Liou, Tsan H

    2016-04-01

    Previously, we reported the use of an International Classification of Functioning (ICF) core set that can provide a holistic framework for evaluating the risk factors of falls; however, data on the feasibility of applying this core set are lacking. To investigate the feasibility of applying the fall-related ICF risk-factor core set in the case of patients in an acute-rehabilitation setting. A cross-sectional and descriptive correlational design. Acute-rehabilitation ward. A total of 273 patients who experienced fall at acute-rehabilitation ward. The data on falls were collected from the hospital's Nursing Information System (NIS) and the fall-reporting system (Adverse Event Reporting System, AERS) between 2010 and 2013. The relationship of both systems to the fall-related ICF core set was analyzed to assess the feasibility of their clinical application. We evaluated the feasibility of using the fall-related ICF risk-factor core set by using the frequency and the percentage of the fall patients in of the listed categories. The fall-related ICF risk-factor core set category b735 (muscle tone functions) exhibited a high feasibility (85.95%) for clinical application, and the category b730 (muscle power functions) covered 77.11% of the patients. The feasibility of application of the category d410 (change basic body position) was also high in the case of all fall patients (81.69%). In the acute-rehabilitation setting, the feasibility of application of the fall-related ICF risk-factor core set is high. The fall-related ICF risk-factor core set can help multidisciplinary teams develop fall-prevention strategies in acute rehabilitation wards.

  9. Leading product-related environmental performance indicators: a selection guide and database

    DEFF Research Database (Denmark)

    Issa, Isabela I.; Pigosso, Daniela Cristina Antelmi; McAloone, Tim C.

    2015-01-01

    Ecodesign is a proactive environmental management and improvement approach employed in the product development process, which aims to minimize the environmental impacts caused during a product's life cycle and thus improve its environmental performance. The establishment of measurable environmental...... in the selection and application of environmental performance indicators - a more structured approach is still lacking. This paper presents the efforts made to identify and systematize existing leading product-related environmental performance indicators, based on a systematic literature review, and to develop...

  10. Bibliographic database of PACS-related articles from the SPIE literature

    Science.gov (United States)

    Shile, Peter E.; Freiermuth, Jennifer

    1996-05-01

    Publications of the International Society of Optical Engineering (SPIE) contain much of the relevant literature on Picture Archiving and Communications Systems (PACS) and related topics. In fact, many PACS-related articles indexed by the National Library of Medicine contain references to articles published by SPIE. Unfortunately, SPIE publications themselves are not indexed by the National Library of Medicine and thus can not be identified through Medline. The lack of a convenient mechanism for searching the SPIE literature is problematic for researchers in medical imaging. With the recent introduction on SPIE's Internet server of their Abstracts Online service and their In-CiteTM title and author searching software, the SPIE literature has become more accessible. However, the searching process is still a cumbersome and time consuming process, and it is not possible to perform key word searches of manuscript abstracts. In this paper we present results of our work on developing a mechanism to more thoroughly search SPIE publications for PACS-related articles.

  11. Identification of the proteins related to SET-mediated hepatic cytotoxicity of trichloroethylene by proteomic analysis.

    Science.gov (United States)

    Ren, Xiaohu; Yang, Xifei; Hong, Wen-Xu; Huang, Peiwu; Wang, Yong; Liu, Wei; Ye, Jinbo; Huang, Haiyan; Huang, Xinfeng; Shen, Liming; Yang, Linqing; Zhuang, Zhixiong; Liu, Jianjun

    2014-05-16

    Trichloroethylene (TCE) is an effective solvent for a variety of organic materials. Since the wide use of TCE as industrial degreasing of metals, adhesive paint and polyvinyl chloride production, TCE has turned into an environmental and occupational toxicant. Exposure to TCE could cause severe hepatotoxicity; however, the toxic mechanisms of TCE remain poorly understood. Recently, we reported that SET protein mediated TCE-induced cytotoxicity in L-02 cells. Here, we further identified the proteins related to SET-mediated hepatic cytotoxicity of TCE using the techniques of DIGE (differential gel electrophoresis) and MALDI-TOF-MS/MS. Among the 20 differential proteins identified, 8 were found to be modulated by SET in TCE-induced cytotoxicity and three of them (cofilin-1, peroxiredoxin-2 and S100-A11) were validated by Western-blot analysis. The functional analysis revealed that most of the identified SET-modulated proteins are apoptosis-associated proteins. These data indicated that these proteins may be involved in SET-mediated hepatic cytotoxicity of TCE in L-02 cells. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

  12. PrimateLit Database

    Science.gov (United States)

    Primate Info Net Related Databases NCRR PrimateLit: A bibliographic database for primatology Top of any problems with this service. We welcome your feedback. The PrimateLit database is no longer being Resources, National Institutes of Health. The database is a collaborative project of the Wisconsin Primate

  13. Identification of Anhydrobiosis-related Genes from an Expressed Sequence Tag Database in the Cryptobiotic Midge Polypedilum vanderplanki (Diptera; Chironomidae)*

    Science.gov (United States)

    Cornette, Richard; Kanamori, Yasushi; Watanabe, Masahiko; Nakahara, Yuichi; Gusev, Oleg; Mitsumasu, Kanako; Kadono-Okuda, Keiko; Shimomura, Michihiko; Mita, Kazuei; Kikawada, Takahiro; Okuda, Takashi

    2010-01-01

    Some organisms are able to survive the loss of almost all their body water content, entering a latent state known as anhydrobiosis. The sleeping chironomid (Polypedilum vanderplanki) lives in the semi-arid regions of Africa, and its larvae can survive desiccation in an anhydrobiotic form during the dry season. To unveil the molecular mechanisms of this resistance to desiccation, an anhydrobiosis-related Expressed Sequence Tag (EST) database was obtained from the sequences of three cDNA libraries constructed from P. vanderplanki larvae after 0, 12, and 36 h of desiccation. The database contained 15,056 ESTs distributed into 4,807 UniGene clusters. ESTs were classified according to gene ontology categories, and putative expression patterns were deduced for all clusters on the basis of the number of clones in each library; expression patterns were confirmed by real-time PCR for selected genes. Among up-regulated genes, antioxidants, late embryogenesis abundant (LEA) proteins, and heat shock proteins (Hsps) were identified as important groups for anhydrobiosis. Genes related to trehalose metabolism and various transporters were also strongly induced by desiccation. Those results suggest that the oxidative stress response plays a central role in successful anhydrobiosis. Similarly, protein denaturation and aggregation may be prevented by marked up-regulation of Hsps and the anhydrobiosis-specific LEA proteins. A third major feature is the predicted increase in trehalose synthesis and in the expression of various transporter proteins allowing the distribution of trehalose and other solutes to all tissues. PMID:20833722

  14. Pathology report data extraction from relational database using R, with extraction from reports on melanoma of skin as an example

    Directory of Open Access Journals (Sweden)

    Jay J Ye

    2016-01-01

    Full Text Available Background: Different methods have been described for data extraction from pathology reports with varying degrees of success. Here a technique for directly extracting data from relational database is described. Methods: Our department uses synoptic reports modified from College of American Pathologists (CAP Cancer Protocol Templates to report most of our cancer diagnoses. Choosing the melanoma of skin synoptic report as an example, R scripting language extended with RODBC package was used to query the pathology information system database. Reports containing melanoma of skin synoptic report in the past 4 and a half years were retrieved and individual data elements were extracted. Using the retrieved list of the cases, the database was queried a second time to retrieve/extract the lymph node staging information in the subsequent reports from the same patients. Results: 426 synoptic reports corresponding to unique lesions of melanoma of skin were retrieved, and data elements of interest were extracted into an R data frame. The distribution of Breslow depth of melanomas grouped by year is used as an example of intra-report data extraction and analysis. When the new pN staging information was present in the subsequent reports, 82% (77/94 was precisely retrieved (pN0, pN1, pN2 and pN3. Additional 15% (14/94 was retrieved with certain ambiguity (positive or knowing there was an update. The specificity was 100% for both. The relationship between Breslow depth and lymph node status was graphed as an example of lesion-specific multi-report data extraction and analysis. Conclusions: R extended with RODBC package is a simple and versatile approach well-suited for the above tasks. The success or failure of the retrieval and extraction depended largely on whether the reports were formatted and whether the contents of the elements were consistently phrased. This approach can be easily modified and adopted for other pathology information systems that use

  15. A Python tool to set up relative free energy calculations in GROMACS.

    Science.gov (United States)

    Klimovich, Pavel V; Mobley, David L

    2015-11-01

    Free energy calculations based on molecular dynamics (MD) simulations have seen a tremendous growth in the last decade. However, it is still difficult and tedious to set them up in an automated manner, as the majority of the present-day MD simulation packages lack that functionality. Relative free energy calculations are a particular challenge for several reasons, including the problem of finding a common substructure and mapping the transformation to be applied. Here we present a tool, alchemical-setup.py, that automatically generates all the input files needed to perform relative solvation and binding free energy calculations with the MD package GROMACS. When combined with Lead Optimization Mapper (LOMAP; Liu et al. in J Comput Aided Mol Des 27(9):755-770, 2013), recently developed in our group, alchemical-setup.py allows fully automated setup of relative free energy calculations in GROMACS. Taking a graph of the planned calculations and a mapping, both computed by LOMAP, our tool generates the topology and coordinate files needed to perform relative free energy calculations for a given set of molecules, and provides a set of simulation input parameters. The tool was validated by performing relative hydration free energy calculations for a handful of molecules from the SAMPL4 challenge (Mobley et al. in J Comput Aided Mol Des 28(4):135-150, 2014). Good agreement with previously published results and the straightforward way in which free energy calculations can be conducted make alchemical-setup.py a promising tool for automated setup of relative solvation and binding free energy calculations.

  16. Grade-related differences in strategy use in multidigit division in two instructional settings.

    Science.gov (United States)

    Hickendorff, Marian; Torbeyns, Joke; Verschaffel, Lieven

    2017-11-23

    We aimed to investigate upper elementary children's strategy use in the domain of multidigit division in two instructional settings: the Netherlands and Flanders (Belgium). A cross-sectional sample of 119 Dutch and 122 Flemish fourth to sixth graders solved a varied set of multidigit division problems. With latent class analysis, three distinct strategy profiles were identified: children consistently using number-based strategies, children combining the use of column-based and number-based strategies, and children combining the use of digit-based and number-based strategies. The relation between children's strategy profiles and their instructional setting (country) and grade were generally in line with instructional differences, but large individual differences remained. Furthermore, Dutch children more frequently made adaptive strategy choices and realistic solutions than their Flemish peers. These results complement and refine previous findings on children's strategy use in relation to mathematics instruction. Statement of contribution What is already known? Mathematics education reform emphasizes variety, adaptivity, and insight in arithmetic strategies. Countries have different instructional trajectories for multidigit division. Mixed results on the impact of instruction on children's strategy use in multidigit division. What does this study add? Latent class analysis identified three meaningful strategy profiles in children from grades 4-6. These strategy profiles substantially differed between children. Dutch and Flemish children's strategy use is related to their instructional trajectory. © 2017 The Authors. British Journal of Developmental Psychology published by John Wiley & Sons Ltd on behalf of British Psychological Society.

  17. FALCAO - a relational database to storaging the variables monitored in the research reactor IEA-R1

    International Nuclear Information System (INIS)

    Gomes Neto, Jose; Andrade, Delvonei Alves de

    2007-01-01

    The objective of this work is to introduce all initial steps for the creation of a relational database, named FALCAO, to support the storaging of the monitored variables in the IEA-R1 research reactor, located in the Instituto de Pesquisas Energeticas e Nucleares, IPEN-CNEN/SP. As introduction, it is considered the modeling importance of the logic diagram and its direct influence in the integrity of the provided information. It is presented the concepts and steps of normalization and denormalization including the entities and relations involved in the logical model. It is also presented the effects of the model rules in the acquisition, loading and availability of the final information, under the performance concept, since the acquisition process, loads and provides lots of information in small intervals of time. The data logical model, considering the desired performance and the sharing information is also presented. (author)

  18. The Danish Fracture Database can monitor quality of fracture-related surgery, surgeons' experience level and extent of supervision

    DEFF Research Database (Denmark)

    Andersen, Morten Jon; Gromov, Kirill; Brix, Michael

    2014-01-01

    INTRODUCTION: The importance of supervision and of surgeons' level of experience in relation to patient outcome have been demonstrated in both hip fracture and arthroplasty surgery. The aim of this study was to describe the surgeons' experience level and the extent of supervision for: 1) fracture......-related surgery in general; 2) the three most frequent primary operations and reoperations; and 3) primary operations during and outside regular working hours. MATERIAL AND METHODS: A total of 9,767 surgical procedures were identified from the Danish Fracture Database (DFDB). Procedures were grouped based...... on the surgeons' level of experience, extent of supervision, type (primary, planned secondary or reoperation), classification (AO Müller), and whether they were performed during or outside regular hours. RESULTS: Interns and junior residents combined performed 46% of all procedures. A total of 90% of surgeries...

  19. The Danish Fracture Database can monitor quality of fracture-related surgery, surgeons' experience level and extent of supervision

    DEFF Research Database (Denmark)

    Andersen, M. J.; Gromov, K.; Brix, M.

    2014-01-01

    INTRODUCTION: The importance of supervision and of surgeons' level of experience in relation to patient outcome have been demonstrated in both hip fracture and arthroplasty surgery. The aim of this study was to describe the surgeons' experience level and the extent of supervision for: 1) fracture......-related surgery in general; 2) the three most frequent primary operations and reoperations; and 3) primary operations during and outside regular working hours. MATERIAL AND METHODS: A total of 9,767 surgical procedures were identified from the Danish Fracture Database (DFDB). Procedures were grouped based...... on the surgeons' level of experience, extent of supervision, type (primary, planned secondary or reoperation), classification (AO Muller), and whether they were performed during or outside regular hours. RESULTS: Interns and junior residents combined performed 46% of all procedures. A total of 90% of surgeries...

  20. A Relation Extraction Framework for Biomedical Text Using Hybrid Feature Set

    Directory of Open Access Journals (Sweden)

    Abdul Wahab Muzaffar

    2015-01-01

    Full Text Available The information extraction from unstructured text segments is a complex task. Although manual information extraction often produces the best results, it is harder to manage biomedical data extraction manually because of the exponential increase in data size. Thus, there is a need for automatic tools and techniques for information extraction in biomedical text mining. Relation extraction is a significant area under biomedical information extraction that has gained much importance in the last two decades. A lot of work has been done on biomedical relation extraction focusing on rule-based and machine learning techniques. In the last decade, the focus has changed to hybrid approaches showing better results. This research presents a hybrid feature set for classification of relations between biomedical entities. The main contribution of this research is done in the semantic feature set where verb phrases are ranked using Unified Medical Language System (UMLS and a ranking algorithm. Support Vector Machine and Naïve Bayes, the two effective machine learning techniques, are used to classify these relations. Our approach has been validated on the standard biomedical text corpus obtained from MEDLINE 2001. Conclusively, it can be articulated that our framework outperforms all state-of-the-art approaches used for relation extraction on the same corpus.

  1. A framework for organizing cancer-related variations from existing databases, publications and NGS data using a High-performance Integrated Virtual Environment (HIVE).

    Science.gov (United States)

    Wu, Tsung-Jung; Shamsaddini, Amirhossein; Pan, Yang; Smith, Krista; Crichton, Daniel J; Simonyan, Vahan; Mazumder, Raja

    2014-01-01

    Years of sequence feature curation by UniProtKB/Swiss-Prot, PIR-PSD, NCBI-CDD, RefSeq and other database biocurators has led to a rich repository of information on functional sites of genes and proteins. This information along with variation-related annotation can be used to scan human short sequence reads from next-generation sequencing (NGS) pipelines for presence of non-synonymous single-nucleotide variations (nsSNVs) that affect functional sites. This and similar workflows are becoming more important because thousands of NGS data sets are being made available through projects such as The Cancer Genome Atlas (TCGA), and researchers want to evaluate their biomarkers in genomic data. BioMuta, an integrated sequence feature database, provides a framework for automated and manual curation and integration of cancer-related sequence features so that they can be used in NGS analysis pipelines. Sequence feature information in BioMuta is collected from the Catalogue of Somatic Mutations in Cancer (COSMIC), ClinVar, UniProtKB and through biocuration of information available from publications. Additionally, nsSNVs identified through automated analysis of NGS data from TCGA are also included in the database. Because of the petabytes of data and information present in NGS primary repositories, a platform HIVE (High-performance Integrated Virtual Environment) for storing, analyzing, computing and curating NGS data and associated metadata has been developed. Using HIVE, 31 979 nsSNVs were identified in TCGA-derived NGS data from breast cancer patients. All variations identified through this process are stored in a Curated Short Read archive, and the nsSNVs from the tumor samples are included in BioMuta. Currently, BioMuta has 26 cancer types with 13 896 small-scale and 308 986 large-scale study-derived variations. Integration of variation data allows identifications of novel or common nsSNVs that can be prioritized in validation studies. Database URL: BioMuta: http

  2. Executing Complexity-Increasing Queries in Relational (MySQL) and NoSQL (MongoDB and EXist) Size-Growing ISO/EN 13606 Standardized EHR Databases.

    Science.gov (United States)

    Sánchez-de-Madariaga, Ricardo; Muñoz, Adolfo; Castro, Antonio L; Moreno, Oscar; Pascual, Mario

    2018-03-19

    This research shows a protocol to assess the computational complexity of querying relational and non-relational (NoSQL (not only Structured Query Language)) standardized electronic health record (EHR) medical information database systems (DBMS). It uses a set of three doubling-sized databases, i.e. databases storing 5000, 10,000 and 20,000 realistic standardized EHR extracts, in three different database management systems (DBMS): relational MySQL object-relational mapping (ORM), document-based NoSQL MongoDB, and native extensible markup language (XML) NoSQL eXist. The average response times to six complexity-increasing queries were computed, and the results showed a linear behavior in the NoSQL cases. In the NoSQL field, MongoDB presents a much flatter linear slope than eXist. NoSQL systems may also be more appropriate to maintain standardized medical information systems due to the special nature of the updating policies of medical information, which should not affect the consistency and efficiency of the data stored in NoSQL databases. One limitation of this protocol is the lack of direct results of improved relational systems such as archetype relational mapping (ARM) with the same data. However, the interpolation of doubling-size database results to those presented in the literature and other published results suggests that NoSQL systems might be more appropriate in many specific scenarios and problems to be solved. For example, NoSQL may be appropriate for document-based tasks such as EHR extracts used in clinical practice, or edition and visualization, or situations where the aim is not only to query medical information, but also to restore the EHR in exactly its original form.

  3. Executing Complexity-Increasing Queries in Relational (MySQL) and NoSQL (MongoDB and EXist) Size-Growing ISO/EN 13606 Standardized EHR Databases

    Science.gov (United States)

    Sánchez-de-Madariaga, Ricardo; Muñoz, Adolfo; Castro, Antonio L; Moreno, Oscar; Pascual, Mario

    2018-01-01

    This research shows a protocol to assess the computational complexity of querying relational and non-relational (NoSQL (not only Structured Query Language)) standardized electronic health record (EHR) medical information database systems (DBMS). It uses a set of three doubling-sized databases, i.e. databases storing 5000, 10,000 and 20,000 realistic standardized EHR extracts, in three different database management systems (DBMS): relational MySQL object-relational mapping (ORM), document-based NoSQL MongoDB, and native extensible markup language (XML) NoSQL eXist. The average response times to six complexity-increasing queries were computed, and the results showed a linear behavior in the NoSQL cases. In the NoSQL field, MongoDB presents a much flatter linear slope than eXist. NoSQL systems may also be more appropriate to maintain standardized medical information systems due to the special nature of the updating policies of medical information, which should not affect the consistency and efficiency of the data stored in NoSQL databases. One limitation of this protocol is the lack of direct results of improved relational systems such as archetype relational mapping (ARM) with the same data. However, the interpolation of doubling-size database results to those presented in the literature and other published results suggests that NoSQL systems might be more appropriate in many specific scenarios and problems to be solved. For example, NoSQL may be appropriate for document-based tasks such as EHR extracts used in clinical practice, or edition and visualization, or situations where the aim is not only to query medical information, but also to restore the EHR in exactly its original form. PMID:29608174

  4. "One Problem Became Another": Disclosure of Rape-Related Pregnancy in the Abortion Care Setting.

    Science.gov (United States)

    Perry, Rachel; Murphy, Molly; Haider, Sadia; Harwood, Bryna

    2015-01-01

    We sought to explore the experiences of women who disclosed that their pregnancies resulted from rape in the abortion care setting, as well as the experiences of professionals involved in care of women with rape-related pregnancy. In-depth interviews were conducted with 9 patients who had terminated rape-related pregnancies and 12 professionals working in abortion care or rape crisis advocacy (5 abortion providers, 4 rape crisis center advocates, 2 social workers, and 1 clinic administrator). Transcribed interviews were coded and analyzed for themes related to the experiences of disclosing rape and the consequences of disclosure in the abortion care setting. Patients and professionals involved in care of women with rape-related pregnancy described opportunities arising from disclosure, including interpersonal (explaining abortion decision making in the context of assault, belief, and caring by providers), as well as structural opportunities (funding assistance, legal options, and mental health options). Whereas most patients did not choose to pursue all three structural opportunities, both patients and professionals emphasized the importance of offering them. The most important consequence of disclosure for patients was being believed and feeling that providers cared about them. Rape-related pregnancy disclosure in the abortion care setting can lead to opportunities for interpersonal support and open options for funding, legal recourse, and mental health care. Those working in abortion care should create environments conducive to disclosure and opportunities for rape survivors to access these additional options if they desire. Copyright © 2015 Jacobs Institute of Women's Health. Published by Elsevier Inc. All rights reserved.

  5. Making sense of large data sets without annotations: analyzing age-related correlations from lung CT scans

    Science.gov (United States)

    Dicente Cid, Yashin; Mamonov, Artem; Beers, Andrew; Thomas, Armin; Kovalev, Vassili; Kalpathy-Cramer, Jayashree; Müller, Henning

    2017-03-01

    The analysis of large data sets can help to gain knowledge about specific organs or on specific diseases, just as big data analysis does in many non-medical areas. This article aims to gain information from 3D volumes, so the visual content of lung CT scans of a large number of patients. In the case of the described data set, only little annotation is available on the patients that were all part of an ongoing screening program and besides age and gender no information on the patient and the findings was available for this work. This is a scenario that can happen regularly as image data sets are produced and become available in increasingly large quantities but manual annotations are often not available and also clinical data such as text reports are often harder to share. We extracted a set of visual features from 12,414 CT scans of 9,348 patients that had CT scans of the lung taken in the context of a national lung screening program in Belarus. Lung fields were segmented by two segmentation algorithms and only cases where both algorithms were able to find left and right lung and had a Dice coefficient above 0.95 were analyzed. This assures that only segmentations of good quality were used to extract features of the lung. Patients ranged in age from 0 to 106 years. Data analysis shows that age can be predicted with a fairly high accuracy for persons under 15 years. Relatively good results were also obtained between 30 and 65 years where a steady trend is seen. For young adults and older people the results are not as good as variability is very high in these groups. Several visualizations of the data show the evolution patters of the lung texture, size and density with age. The experiments allow learning the evolution of the lung and the gained results show that even with limited metadata we can extract interesting information from large-scale visual data. These age-related changes (for example of the lung volume, the density histogram of the tissue) can also be

  6. Visualisation of variable binding pockets on protein surfaces by probabilistic analysis of related structure sets

    Directory of Open Access Journals (Sweden)

    Ashford Paul

    2012-03-01

    Full Text Available Abstract Background Protein structures provide a valuable resource for rational drug design. For a protein with no known ligand, computational tools can predict surface pockets that are of suitable size and shape to accommodate a complementary small-molecule drug. However, pocket prediction against single static structures may miss features of pockets that arise from proteins' dynamic behaviour. In particular, ligand-binding conformations can be observed as transiently populated states of the apo protein, so it is possible to gain insight into ligand-bound forms by considering conformational variation in apo proteins. This variation can be explored by considering sets of related structures: computationally generated conformers, solution NMR ensembles, multiple crystal structures, homologues or homology models. It is non-trivial to compare pockets, either from different programs or across sets of structures. For a single structure, difficulties arise in defining particular pocket's boundaries. For a set of conformationally distinct structures the challenge is how to make reasonable comparisons between them given that a perfect structural alignment is not possible. Results We have developed a computational method, Provar, that provides a consistent representation of predicted binding pockets across sets of related protein structures. The outputs are probabilities that each atom or residue of the protein borders a predicted pocket. These probabilities can be readily visualised on a protein using existing molecular graphics software. We show how Provar simplifies comparison of the outputs of different pocket prediction algorithms, of pockets across multiple simulated conformations and between homologous structures. We demonstrate the benefits of use of multiple structures for protein-ligand and protein-protein interface analysis on a set of complexes and consider three case studies in detail: i analysis of a kinase superfamily highlights the

  7. Visualisation of variable binding pockets on protein surfaces by probabilistic analysis of related structure sets.

    Science.gov (United States)

    Ashford, Paul; Moss, David S; Alex, Alexander; Yeap, Siew K; Povia, Alice; Nobeli, Irene; Williams, Mark A

    2012-03-14

    Protein structures provide a valuable resource for rational drug design. For a protein with no known ligand, computational tools can predict surface pockets that are of suitable size and shape to accommodate a complementary small-molecule drug. However, pocket prediction against single static structures may miss features of pockets that arise from proteins' dynamic behaviour. In particular, ligand-binding conformations can be observed as transiently populated states of the apo protein, so it is possible to gain insight into ligand-bound forms by considering conformational variation in apo proteins. This variation can be explored by considering sets of related structures: computationally generated conformers, solution NMR ensembles, multiple crystal structures, homologues or homology models. It is non-trivial to compare pockets, either from different programs or across sets of structures. For a single structure, difficulties arise in defining particular pocket's boundaries. For a set of conformationally distinct structures the challenge is how to make reasonable comparisons between them given that a perfect structural alignment is not possible. We have developed a computational method, Provar, that provides a consistent representation of predicted binding pockets across sets of related protein structures. The outputs are probabilities that each atom or residue of the protein borders a predicted pocket. These probabilities can be readily visualised on a protein using existing molecular graphics software. We show how Provar simplifies comparison of the outputs of different pocket prediction algorithms, of pockets across multiple simulated conformations and between homologous structures. We demonstrate the benefits of use of multiple structures for protein-ligand and protein-protein interface analysis on a set of complexes and consider three case studies in detail: i) analysis of a kinase superfamily highlights the conserved occurrence of surface pockets at the active

  8. WholeCellSimDB: a hybrid relational/HDF database for whole-cell model predictions.

    Science.gov (United States)

    Karr, Jonathan R; Phillips, Nolan C; Covert, Markus W

    2014-01-01

    Mechanistic 'whole-cell' models are needed to develop a complete understanding of cell physiology. However, extracting biological insights from whole-cell models requires running and analyzing large numbers of simulations. We developed WholeCellSimDB, a database for organizing whole-cell simulations. WholeCellSimDB was designed to enable researchers to search simulation metadata to identify simulations for further analysis, and quickly slice and aggregate simulation results data. In addition, WholeCellSimDB enables users to share simulations with the broader research community. The database uses a hybrid relational/hierarchical data format architecture to efficiently store and retrieve both simulation setup metadata and results data. WholeCellSimDB provides a graphical Web-based interface to search, browse, plot and export simulations; a JavaScript Object Notation (JSON) Web service to retrieve data for Web-based visualizations; a command-line interface to deposit simulations; and a Python API to retrieve data for advanced analysis. Overall, we believe WholeCellSimDB will help researchers use whole-cell models to advance basic biological science and bioengineering. http://www.wholecellsimdb.org SOURCE CODE REPOSITORY: URL: http://github.com/CovertLab/WholeCellSimDB. © The Author(s) 2014. Published by Oxford University Press.

  9. Aviation Safety Issues Database

    Science.gov (United States)

    Morello, Samuel A.; Ricks, Wendell R.

    2009-01-01

    The aviation safety issues database was instrumental in the refinement and substantiation of the National Aviation Safety Strategic Plan (NASSP). The issues database is a comprehensive set of issues from an extremely broad base of aviation functions, personnel, and vehicle categories, both nationally and internationally. Several aviation safety stakeholders such as the Commercial Aviation Safety Team (CAST) have already used the database. This broader interest was the genesis to making the database publically accessible and writing this report.

  10. Health-related quality of life of irritable bowel syndrome patients in different cultural settings.

    Science.gov (United States)

    Faresjö, Ashild; Anastasiou, Foteini; Lionis, Christos; Johansson, Saga; Wallander, Mari-Ann; Faresjö, Tomas

    2006-03-27

    Persons with Irritable bowel syndrome (IBS) are seriously affected in their everyday life. The effect across different cultural settings of IBS on their quality of life has been little studied. The aim was to compare health-related quality of life (HRQOL) of individuals suffering from IBS in two different cultural settings; Crete, Greece and Linköping, Sweden. This study is a sex and age-matched case-control study, with n = 30 Cretan IBS cases and n = 90 Swedish IBS cases and a Swedish control group (n = 300) randomly selected from the general population. Health-related quality of life, measured by SF-36 and demographics, life style indicators and co-morbidity, was measured. Cretan IBS cases reported lower HRQOL on most dimensions of SF-36 in comparison to the Swedish IBS cases. Significant differences were found for the dimensions mental health (p cultural environments could perceive their disease differently and that the disease might affect their everyday life and quality of life in a different way. The Cretan population, and especially women, are more seriously affected mentally by their disease than Swedish IBS cases. Coping with IBS in everyday life might be more problematic in the Cretan environment than in the Swedish setting.

  11. Health-related quality of life of irritable bowel syndrome patients in different cultural settings

    Science.gov (United States)

    Faresjö, Åshild; Anastasiou, Foteini; Lionis, Christos; Johansson, Saga; Wallander, Mari-Ann; Faresjö, Tomas

    2006-01-01

    Background Persons with Irritable bowel syndrome (IBS) are seriously affected in their everyday life. The effect across different cultural settings of IBS on their quality of life has been little studied. The aim was to compare health-related quality of life (HRQOL) of individuals suffering from IBS in two different cultural settings; Crete, Greece and Linköping, Sweden. Methods This study is a sex and age-matched case-control study, with n = 30 Cretan IBS cases and n = 90 Swedish IBS cases and a Swedish control group (n = 300) randomly selected from the general population. Health-related quality of life, measured by SF-36 and demographics, life style indicators and co-morbidity, was measured. Results Cretan IBS cases reported lower HRQOL on most dimensions of SF-36 in comparison to the Swedish IBS cases. Significant differences were found for the dimensions mental health (p cultural environments could perceive their disease differently and that the disease might affect their everyday life and quality of life in a different way. The Cretan population, and especially women, are more seriously affected mentally by their disease than Swedish IBS cases. Coping with IBS in everyday life might be more problematic in the Cretan environment than in the Swedish setting. PMID:16566821

  12. Determining an Estimate of an Equivalence Relation for Moderate and Large Sized Sets

    Directory of Open Access Journals (Sweden)

    Leszek Klukowski

    2017-01-01

    Full Text Available This paper presents two approaches to determining estimates of an equivalence relation on the basis of pairwise comparisons with random errors. Obtaining such an estimate requires the solution of a discrete programming problem which minimizes the sum of the differences between the form of the relation and the comparisons. The problem is NP hard and can be solved with the use of exact algorithms for sets of moderate size, i.e. about 50 elements. In the case of larger sets, i.e. at least 200 comparisons for each element, it is necessary to apply heuristic algorithms. The paper presents results (a statistical preprocessing, which enable us to determine the optimal or a near-optimal solution with acceptable computational cost. They include: the development of a statistical procedure producing comparisons with low probabilities of errors and a heuristic algorithm based on such comparisons. The proposed approach guarantees the applicability of such estimators for any size of set. (original abstract

  13. Health-related quality of life of irritable bowel syndrome patients in different cultural settings

    Directory of Open Access Journals (Sweden)

    Johansson Saga

    2006-03-01

    Full Text Available Abstract Background Persons with Irritable bowel syndrome (IBS are seriously affected in their everyday life. The effect across different cultural settings of IBS on their quality of life has been little studied. The aim was to compare health-related quality of life (HRQOL of individuals suffering from IBS in two different cultural settings; Crete, Greece and Linköping, Sweden. Methods This study is a sex and age-matched case-control study, with n = 30 Cretan IBS cases and n = 90 Swedish IBS cases and a Swedish control group (n = 300 randomly selected from the general population. Health-related quality of life, measured by SF-36 and demographics, life style indicators and co-morbidity, was measured. Results Cretan IBS cases reported lower HRQOL on most dimensions of SF-36 in comparison to the Swedish IBS cases. Significant differences were found for the dimensions mental health (p Conclusion The results from this study tentatively support that the claim that similar individuals having the same disease, e.g. IBS, but living in different cultural environments could perceive their disease differently and that the disease might affect their everyday life and quality of life in a different way. The Cretan population, and especially women, are more seriously affected mentally by their disease than Swedish IBS cases. Coping with IBS in everyday life might be more problematic in the Cretan environment than in the Swedish setting.

  14. An Interoperable Cartographic Database

    OpenAIRE

    Slobodanka Ključanin; Zdravko Galić

    2007-01-01

    The concept of producing a prototype of interoperable cartographic database is explored in this paper, including the possibilities of integration of different geospatial data into the database management system and their visualization on the Internet. The implementation includes vectorization of the concept of a single map page, creation of the cartographic database in an object-relation database, spatial analysis, definition and visualization of the database content in the form of a map on t...

  15. Incidence of catheter-related complications in patients with central venous or hemodialysis catheters: a health care claims database analysis.

    Science.gov (United States)

    Napalkov, Pavel; Felici, Diana M; Chu, Laura K; Jacobs, Joan R; Begelman, Susan M

    2013-10-16

    Central venous catheter (CVC) and hemodialysis (HD) catheter usage are associated with complications that occur during catheter insertion, dwell period, and removal. This study aims to identify and describe the incidence rates of catheter-related complications in a large patient population in a United States-based health care claims database after CVC or HD catheter placement. Patients in the i3 InVision DataMart® health care claims database with at least 1 CVC or HD catheter insertion claim were categorized into CVC or HD cohorts using diagnostic and procedural codes from the US Renal Data System, American College of Surgeons, and American Medical Association's Physician Performance Measures. Catheter-related complications were identified using published diagnostic and procedural codes. Incidence rates (IRs)/1000 catheter-days were calculated for complications including catheter-related bloodstream infections (CRBSIs), thrombosis, embolism, intracranial hemorrhage (ICH), major bleeding (MB), and mechanical catheter-related complications (MCRCs). Thirty percent of the CVC cohort and 54% of the HD cohort had catheter placements lasting <90 days. Catheter-related complications occurred most often during the first 90 days of catheter placement. IRs were highest for CRBSIs in both cohorts (4.0 [95% CI, 3.7-4.3] and 5.1 [95% CI, 4.7-5.6], respectively). Other IRs in CVC and HD cohorts, respectively, were thrombosis, 1.3 and 0.8; MCRCs, 0.6 and 0.7; embolism, 0.4 and 0.5; MB, 0.1 and 0.3; and ICH, 0.1 in both cohorts. Patients with cancer at baseline had significantly higher IRs for CRBSIs and thrombosis than non-cancer patients. CVC or HD catheter-related complications were most frequently seen in patients 16 years or younger. The risk of catheter-related complications is highest during the first 90 days of catheter placement in patients with CVCs and HD catheters and in younger patients (≤16 years of age) with HD catheters. Data provided in this study can be applied

  16. Performance Comparison of Relational and Native-XML Databases using the Semantics of the Land Command and Control Information Exchange Data Model (LC2IEDM)

    National Research Council Canada - National Science Library

    Denny, Ian M; Jahn, Dieter

    2005-01-01

    .... The majority of messaging systems store information in a document-centric free-text format that makes it difficult for command and control systems, relational databases, software agents and web...

  17. The Coral Reef Temperature Anomaly Database (CoRTAD) - Global, 4 km, Sea Surface Temperature and Related Thermal Stress Metrics for 1985-2005 (NODC Accession 0044419)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Coral Reef Temperature Anomaly Database (CoRTAD) is a collection of sea surface temperature (SST) and related thermal stress metrics, developed specifically for...

  18. DNA algorithms of implementing biomolecular databases on a biological computer.

    Science.gov (United States)

    Chang, Weng-Long; Vasilakos, Athanasios V

    2015-01-01

    In this paper, DNA algorithms are proposed to perform eight operations of relational algebra (calculus), which include Cartesian product, union, set difference, selection, projection, intersection, join, and division, on biomolecular relational databases.

  19. A set for relational reasoning: Facilitation of algebraic modeling by a fraction task.

    Science.gov (United States)

    DeWolf, Melissa; Bassok, Miriam; Holyoak, Keith J

    2016-12-01

    Recent work has identified correlations between early mastery of fractions and later math achievement, especially in algebra. However, causal connections between aspects of reasoning with fractions and improved algebra performance have yet to be established. The current study investigated whether relational reasoning with fractions facilitates subsequent algebraic reasoning using both pre-algebra students and adult college students. Participants were first given either a relational reasoning fractions task or a fraction algebra procedures control task. Then, all participants solved word problems and constructed algebraic equations in either multiplication or division format. The word problems and the equation construction tasks involved simple multiplicative comparison statements such as "There are 4 times as many students as teachers in a classroom." Performance on the algebraic equation construction task was enhanced for participants who had previously completed the relational fractions task compared with those who completed the fraction algebra procedures task. This finding suggests that relational reasoning with fractions can establish a relational set that promotes students' tendency to model relations using algebraic expressions. Copyright © 2016 Elsevier Inc. All rights reserved.

  20. Everyday science & science every day: Science-related talk & activities across settings

    Science.gov (United States)

    Zimmerman, Heather

    To understand the development of science-related thinking, acting, and learning in middle childhood, I studied youth in schools, homes, and other neighborhood settings over a three-year period. The research goal was to analyze how multiple everyday experiences influence children's participation in science-related practices and their thinking about science and scientists. Ethnographic and interaction analysis methodologies were to study the cognition and social interactions of the children as they participated in activities with peers, family, and teachers (n=128). Interviews and participant self-documentation protocols elucidated the participants' understandings of science. An Everyday Expertise (Bell et al., 2006) theoretical framework was employed to study the development of science understandings on three analytical planes: individual learner, social groups, and societal/community resources. Findings came from a cross-case analysis of urban science learners and from two within-case analyses of girls' science-related practices as they transitioned from elementary to middle school. Results included: (1) children participated actively in science across settings---including in their homes as well as in schools, (2) children's interests in science were not always aligned to the school science content, pedagogy, or school structures for participation, yet children found ways to engage with science despite these differences through crafting multiple pathways into science, (3) urban parents were active supporters of STEM-related learning environments through brokering access to social and material resources, (4) the youth often found science in their daily activities that formal education did not make use of, and (5) children's involvement with science-related practices can be developed into design principles to reach youth in culturally relevant ways.

  1. Dressing-related trauma: clinical sequelae and resource utilization in a UK setting

    Directory of Open Access Journals (Sweden)

    Charlesworth B

    2014-04-01

    Full Text Available Bruce Charlesworth,1 Claire Pilling,1 Paul Chadwick,2 Martyn Butcher31Adelphi Values, Macclesfield, 2Salford Royal Foundation Trust, Salford, 3Northern Devon Healthcare Trust, Devon, UKBackground: Dressings are the mainstay of wound care management; however, adherence of the dressing to the wound or periwound skin is common and can lead to dressing-related pain and trauma. Dressing-related trauma is recognized as a clinical and economic burden to patients and health care providers. This study was conducted to garner expert opinion on clinical sequelae and resource use associated with dressing-related trauma in a UK setting.Methods: This was an exploratory study with two phases: qualitative pilot interviews with six wound care specialists to explore dressing-related trauma concepts, sequelae, and resource utilization; and online quantitative research with 30 wound care specialists to validate and quantify the concepts, sequelae, and resource utilization explored in the first phase of the study. Data were collected on mean health care professional time, material costs, pharmaceutical costs, and inpatient management per sequela occurrence until resolution. Data were analyzed to give total costs per sequela and concept occurrence.Results: The results demonstrate that dressing-related trauma is a clinically relevant concept. The main types of dressing-related trauma concepts included skin reactions, adherence to the wound, skin stripping, maceration, drying, and plugging of the wound. These were the foundation for a number of clinical sequelae, including wound enlargement, increased exudate, bleeding, infection, pain, itching/excoriation, edema, dermatitis, inflammation, and anxiety. Mean total costs range from £56 to £175 for the complete onward management of each occurrence of the six main concepts.Conclusion: These results provide insight into the hidden costs of dressing-related trauma in a UK setting. This research successfully conceptualized

  2. Computational tools and resources for metabolism-related property predictions. 1. Overview of publicly available (free and commercial) databases and software.

    Science.gov (United States)

    Peach, Megan L; Zakharov, Alexey V; Liu, Ruifeng; Pugliese, Angelo; Tawa, Gregory; Wallqvist, Anders; Nicklaus, Marc C

    2012-10-01

    Metabolism has been identified as a defining factor in drug development success or failure because of its impact on many aspects of drug pharmacology, including bioavailability, half-life and toxicity. In this article, we provide an outline and descriptions of the resources for metabolism-related property predictions that are currently either freely or commercially available to the public. These resources include databases with data on, and software for prediction of, several end points: metabolite formation, sites of metabolic transformation, binding to metabolizing enzymes and metabolic stability. We attempt to place each tool in historical context and describe, wherever possible, the data it was based on. For predictions of interactions with metabolizing enzymes, we show a typical set of results for a small test set of compounds. Our aim is to give a clear overview of the areas and aspects of metabolism prediction in which the currently available resources are useful and accurate, and the areas in which they are inadequate or missing entirely.

  3. Handbook on surficial uranium deposits. Chapter 3. World distribution relative to climate and physical setting

    International Nuclear Information System (INIS)

    Carlisle, D.

    This chapter discusses regional controls which affect the world distribution of surficial chemogenic uranium deposits. The most important of these are (1) climate, (2) geomorphology, including physiographic and climatic stability, and (3) provenance, i.e., the weathering terrain from which uranium and associated substances are derived. The three economically important environments are the calcrete environment, simple evaporative environments and paludal environments. Of these three categories, the calcrete uranium environment is probably the most uniquely constrained in terms of regional climate, geomorphic setting, provenance (vanadium as well as uranium) and especially the need for long term stability of both climate and physiography. Purely evaporative deposits, though subject to some of the same kinds of constraints, can also reflect local circumstances and a wider range of climates, physiographic settings, and source terrains. The third category encompassing bogs, marshes and organic-rich playas can form under an even wider range of climates and settings provided only that organic materials accumulate in abundance and are contacted by uranium-bearing waters. For all of these reasons and also because of the great economic importance of the calcrete environment as well as its relative novelty and complexity the discussion in this chapter is focused on calcrete, dolocrete and gypcrete uranium deposits. Objective data are reviewed first follwed by inferences and suggestions. 13 figures

  4. Fast Computation of Categorical Richness on Raster Data Sets and Related Problems

    DEFF Research Database (Denmark)

    de Berg, Mark; Tsirogiannis, Constantinos; Wilkinson, Bryan

    2015-01-01

    that runs in O(n) time and one for circular windows that runs in O((1+K/r)n) time, where K is the number of different categories appearing in G. The algorithms are not only very efficient in theory, but also in practice: our experiments show that our algorithms can handle raster data sets of hundreds...... of millions of cells. The categorical richness problem is related to colored range counting, where the goal is to preprocess a colored point set such that we can efficiently count the number of colors appearing inside a query range. We present a data structure for colored range counting in R^2 for the case......In many scientific fields, it is common to encounter raster data sets consisting of categorical data, such as soil type or land usage of a terrain. A problem that arises in the presence of such data is the following: given a raster G of n cells storing categorical data, compute for every cell c...

  5. Relations between mental workload and decision-making in an organizational setting

    Directory of Open Access Journals (Sweden)

    María Soria-Oliver

    2017-05-01

    Full Text Available Asbtract Background The complexity of current organizations implies a potential overload for workers. For this reason, it is of interest to study the effects that mental workload has on the performance of complex tasks in professional settings. Objective The objective of this study is to empirically analyze the relation between the quality of decision-making, on the one hand, and the expected and real mental workload, on the other. Methods The study uses an ex post facto prospective design with a sample of 176 professionals from a higher education organization. Expected mental workload (Pre-Task WL and real mental workload (Post-Task WL were measured with the unweighted NASA-Task Load Index (NASA-TLX questionnaire; difference between real WL and expected WL (Differential WL was also calculated; quality of decision-making was measured by means of the Decision-Making Questionnaire. Results General quality of decision-making and Pre-Task WL relation is compatible with an inverted U pattern, with slight variations depending on the specific dimension of decision-making that is considered. There were no verifiable relations between Post-Task WL and decision-making. The subjects whose expected WL matched the real WL showed worse quality in decision-making than subjects with high or low Differential WL. Conclusions The relations between mental workload and decision-making reveal a complex pattern, with evidence of nonlinear relations.

  6. Cosine and sine operators related to orthogonal polynomial sets on the interval [-1, 1

    International Nuclear Information System (INIS)

    Appl, Thomas; Schiller, Diethard H

    2005-01-01

    The quantization of phase is still an open problem. In the approach of Susskind and Glogower, the so-called cosine and sine operators play a fundamental role. Their eigenstates in the Fock representation are related to the Chebyshev polynomials of the second kind. Here we introduce more general cosine and sine operators whose eigenfunctions in the Fock basis are related in a similar way to arbitrary orthogonal polynomial sets on the interval [-1, 1]. To each polynomial set defined in terms of a weight function there corresponds a pair of cosine and sine operators. Depending on the symmetry of the weight function, we distinguish generalized or extended operators. Their eigenstates are used to define cosine and sine representations and probability distributions. We also consider the arccosine and arcsine operators and use their eigenstates to define cosine-phase and sine-phase distributions, respectively. Specific, numerical and graphical results are given for the classical orthogonal polynomials and for particular Fock and coherent states

  7. Database Systems - Present and Future

    Directory of Open Access Journals (Sweden)

    2009-01-01

    Full Text Available The database systems have nowadays an increasingly important role in the knowledge-based society, in which computers have penetrated all fields of activity and the Internet tends to develop worldwide. In the current informatics context, the development of the applications with databases is the work of the specialists. Using databases, reach a database from various applications, and also some of related concepts, have become accessible to all categories of IT users. This paper aims to summarize the curricular area regarding the fundamental database systems issues, which are necessary in order to train specialists in economic informatics higher education. The database systems integrate and interfere with several informatics technologies and therefore are more difficult to understand and use. Thus, students should know already a set of minimum, mandatory concepts and their practical implementation: computer systems, programming techniques, programming languages, data structures. The article also presents the actual trends in the evolution of the database systems, in the context of economic informatics.

  8. SAADA: Astronomical Databases Made Easier

    Science.gov (United States)

    Michel, L.; Nguyen, H. N.; Motch, C.

    2005-12-01

    Many astronomers wish to share datasets with their community but have not enough manpower to develop databases having the functionalities required for high-level scientific applications. The SAADA project aims at automatizing the creation and deployment process of such databases. A generic but scientifically relevant data model has been designed which allows one to build databases by providing only a limited number of product mapping rules. Databases created by SAADA rely on a relational database supporting JDBC and covered by a Java layer including a lot of generated code. Such databases can simultaneously host spectra, images, source lists and plots. Data are grouped in user defined collections whose content can be seen as one unique set per data type even if their formats differ. Datasets can be correlated one with each other using qualified links. These links help, for example, to handle the nature of a cross-identification (e.g., a distance or a likelihood) or to describe their scientific content (e.g., by associating a spectrum to a catalog entry). The SAADA query engine is based on a language well suited to the data model which can handle constraints on linked data, in addition to classical astronomical queries. These constraints can be applied on the linked objects (number, class and attributes) and/or on the link qualifier values. Databases created by SAADA are accessed through a rich WEB interface or a Java API. We are currently developing an inter-operability module implanting VO protocols.

  9. A pharmacology guided approach for setting limits on product-related impurities for bispecific antibody manufacturing.

    Science.gov (United States)

    Rajan, Sharmila; Sonoda, Junichiro; Tully, Timothy; Williams, Ambrose J; Yang, Feng; Macchi, Frank; Hudson, Terry; Chen, Mark Z; Liu, Shannon; Valle, Nicole; Cowan, Kyra; Gelzleichter, Thomas

    2018-04-13

    bFKB1 is a humanized bispecific IgG1 antibody, created by conjoining an anti-Fibroblast Growth Factor Receptor 1 (FGFR1) half-antibody to an anti-Klothoβ (KLB) half-antibody, using the knobs-into-holes strategy. bFKB1 acts as a highly selective agonist for the FGFR1/KLB receptor complex and is intended to ameliorate obesity-associated metabolic defects by mimicking the activity of the hormone FGF21. An important aspect of the biologics product manufacturing process is to establish meaningful product specifications regarding the tolerable levels of impurities that copurify with the drug product. The aim of the current study was to determine acceptable levels of product-related impurities for bFKB1. To determine the tolerable levels of these impurities, we dosed obese mice with bFKB1 enriched with various levels of either HMW impurities or anti-FGFR1-related impurities, and measured biomarkers for KLB-independent FGFR1 signaling. Here, we show that product-related impurities of bFKB1, in particular, high molecular weight (HMW) impurities and anti-FGFR1-related impurities, when purposefully enriched, stimulate FGFR1 in a KLB-independent manner. By taking this approach, the tolerable levels of product-related impurities were successfully determined. Our study demonstrates a general pharmacology-guided approach to setting a product specification for a bispecific antibody whose homomultimer-related impurities could lead to undesired biological effects. Copyright © 2018. Published by Elsevier Inc.

  10. Draft secure medical database standard.

    Science.gov (United States)

    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.

  11. Comparison of Antidepressant Efficacy-related SNPs Among Taiwanese and Four Populations in the HapMap Database

    Directory of Open Access Journals (Sweden)

    Mei-Hung Chi

    2011-07-01

    Full Text Available The genetic influence of single nucleotide polymorphisms (SNPs on antidepressant efficacy has been previously demonstrated. To evaluate whether there are ethnic differences, we compared the allele frequencies of antidepressant efficacy-related SNPs between the Taiwanese population and four other populations in the HapMap database. We recruited 198 Taiwanese major depression patients and 106 Taiwanese controls. A panel of possible relevant SNPs (in brain-derived neurotrophic factor, 5-hydroxytryptamine receptor 2A, interleukin 1 beta, and G-protein beta 3 subunit genes was selected for comparisons of allele frequencies using the χ2 test. Our results suggested no difference between Taiwanese patients and controls, but there were significant differences among Taiwanese controls and the other four ethnic groups in brain-derived neurotrophic factor, 5-hydroxytryptamine receptor 2A, interleukin 1 beta and G-protein beta 3 subunit genes. We conclude that there are ethnic differences in the allele frequencies of antidepressant efficacy-related SNPs, and that the degree of variations is consistent with geographic distances. Further investigation is required to verify the attribution of genetic differences to ethnic-specific antidepressant responses.

  12. A support vector machine and a random forest classifier indicates a 15-miRNA set related to osteosarcoma recurrence

    Directory of Open Access Journals (Sweden)

    He Y

    2018-01-01

    Full Text Available Yunfei He,1,2,* Jun Ma,1,* An Wang,1,3,* Weiheng Wang,1 Shengchang Luo,1 Yaoming Liu,2 Xiaojian Ye1 1Department of Orthopaedics, Changzheng Hospital Affiliated with Second Military Medical University, Shanghai, 2Department of Orthopaedics, Lanzhou General Hospital of Lanzhou Military Command Region, Lanzhou, 3Department of Orthopaedics, Shanghai Armed Police Force Hospital, Shanghai, People’s Republic of China *These authors contributed equally to this work Background: Osteosarcoma, which originates in the mesenchymal tissue, is the prevalent primary solid malignancy of the bone. It is of great importance to explore the mechanisms of metastasis and recurrence, which are two primary reasons accounting for the high death rate in osteosarcoma. Data and methods: Three miRNA expression profiles related to osteosarcoma were downloaded from GEO DataSets. Differentially expressed miRNAs (DEmiRs were screened using MetaDE.ES of the MetaDE package. A support vector machine (SVM classifier was constructed using optimal miRNAs, and its prediction efficiency for recurrence was detected in independent datasets. Finally, a co-expression network was constructed based on the DEmiRs and their target genes. Results: In total, 78 significantly DEmiRs were screened. The SVM classifier constructed by 15 miRNAs could accurately classify 58 samples in 65 samples (89.2% in the GSE39040 database, which was validated in another two databases, GSE39052 (84.62%, 22/26 and GSE79181 (91.3%, 21/23. Cox regression showed that four miRNAs, including hsa-miR-10b, hsa-miR-1227, hsa-miR-146b-3p, and hsa-miR-873, significantly correlated with tumor recurrence time. There were 137, 147, 145, and 77 target genes of the above four miRNAs, respectively, which were assigned to 17 gene ontology functionally annotated terms and 14 Kyoto Encyclopedia of Genes and Genomes pathways. Among them, the “Osteoclast differentiation” pathway contained a total of seven target genes and was

  13. Analysis of adverse events of renal impairment related to platinum-based compounds using the Japanese Adverse Drug Event Report database.

    Science.gov (United States)

    Naganuma, Misa; Motooka, Yumi; Sasaoka, Sayaka; Hatahira, Haruna; Hasegawa, Shiori; Fukuda, Akiho; Nakao, Satoshi; Shimada, Kazuyo; Hirade, Koseki; Mori, Takayuki; Yoshimura, Tomoaki; Kato, Takeshi; Nakamura, Mitsuhiro

    2018-01-01

    Platinum compounds cause several adverse events, such as nephrotoxicity, gastrointestinal toxicity, myelosuppression, ototoxicity, and neurotoxicity. We evaluated the incidence of renal impairment as adverse events are related to the administration of platinum compounds using the Japanese Adverse Drug Event Report database. We analyzed adverse events associated with the use of platinum compounds reported from April 2004 to November 2016. The reporting odds ratio at 95% confidence interval was used to detect the signal for each renal impairment incidence. We evaluated the time-to-onset profile of renal impairment and assessed the hazard type using Weibull shape parameter and used the applied association rule mining technique to discover undetected relationships such as possible risk factor. In total, 430,587 reports in the Japanese Adverse Drug Event Report database were analyzed. The reporting odds ratios (95% confidence interval) for renal impairment resulting from the use of cisplatin, oxaliplatin, carboplatin, and nedaplatin were 2.7 (2.5-3.0), 0.6 (0.5-0.7), 0.8 (0.7-1.0), and 1.3 (0.8-2.1), respectively. The lower limit of the reporting odds ratio (95% confidence interval) for cisplatin was >1. The median (lower-upper quartile) onset time of renal impairment following the use of platinum-based compounds was 6.0-8.0 days. The Weibull shape parameter β and 95% confidence interval upper limit of oxaliplatin were impairment during cisplatin use in real-world setting. The present findings demonstrate that the incidence of renal impairment following cisplatin use should be closely monitored when patients are hypertensive or diabetic, or when they are co-administered furosemide, loxoprofen, or pemetrexed. In addition, healthcare professionals should closely assess a patient's background prior to treatment.

  14. Exposure to benzodiazepines (anxiolytics, hypnotics and related drugs) in seven European electronic healthcare databases: a cross-national descriptive study from the PROTECT-EU Project.

    Science.gov (United States)

    Huerta, Consuelo; Abbing-Karahagopian, Victoria; Requena, Gema; Oliva, Belén; Alvarez, Yolanda; Gardarsdottir, Helga; Miret, Montserrat; Schneider, Cornelia; Gil, Miguel; Souverein, Patrick C; De Bruin, Marie L; Slattery, Jim; De Groot, Mark C H; Hesse, Ulrik; Rottenkolber, Marietta; Schmiedl, Sven; Montero, Dolores; Bate, Andrew; Ruigomez, Ana; García-Rodríguez, Luis Alberto; Johansson, Saga; de Vries, Frank; Schlienger, Raymond G; Reynolds, Robert F; Klungel, Olaf H; de Abajo, Francisco José

    2016-03-01

    Studies on drug utilization usually do not allow direct cross-national comparisons because of differences in the respective applied methods. This study aimed to compare time trends in BZDs prescribing by applying a common protocol and analyses plan in seven European electronic healthcare databases. Crude and standardized prevalence rates of drug prescribing from 2001-2009 were calculated in databases from Spain, United Kingdon (UK), The Netherlands, Germany and Denmark. Prevalence was stratified by age, sex, BZD type [(using ATC codes), i.e. BZD-anxiolytics BZD-hypnotics, BZD-related drugs and clomethiazole], indication and number of prescription. Crude prevalence rates of BZDs prescribing ranged from 570 to 1700 per 10,000 person-years over the study period. Standardization by age and sex did not substantially change the differences. Standardized prevalence rates increased in the Spanish (+13%) and UK databases (+2% and +8%) over the study period, while they decreased in the Dutch databases (-4% and -22%), the German (-12%) and Danish (-26%) database. Prevalence of anxiolytics outweighed that of hypnotics in the Spanish, Dutch and Bavarian databases, but the reverse was shown in the UK and Danish databases. Prevalence rates consistently increased with age and were two-fold higher in women than in men in all databases. A median of 18% of users received 10 or more prescriptions in 2008. Although similar methods were applied, the prevalence of BZD prescribing varied considerably across different populations. Clinical factors related to BZDs and characteristics of the databases may explain these differences. Copyright © 2015 John Wiley & Sons, Ltd.

  15. Diversity of Pollinator Insects in Relation to Seed Set of Mustard (Brassica rapa L.: Cruciferae

    Directory of Open Access Journals (Sweden)

    TRI ATMOWIDI

    2007-12-01

    Full Text Available Pollinators provide key services to both natural and agricultural ecosystems. Agricultural productivity depends, in part, on pollinator populations from adjacent seminatural habitats. Here we analysed the diversity of pollinator insects and its effect to seed set of mustard (Brassica rapa planted in agricultural ecosystem near the Gunung Halimun-Salak National Park, West Java. At least 19 species of insects pollinated the mustard, and three species, i.e. Apis cerana, Ceratina sp., and Apis dorsata showed a high abundance. The higher abundance and species richness of pollinators occurred at 08.30-10.30 am and the diversity was related to the number of flowering plants. Insect pollinations increased the number of pods, seeds per pod, seed weights per plant, and seed germination.

  16. Diving-related visual loss in the setting of angioid streaks: report of two cases.

    Science.gov (United States)

    Angulo Bocco, Maria I; Spielberg, Leigh; Coppens, Greet; Catherine, Janet; Verougstraete, Claire; Leys, Anita M

    2012-01-01

    The purpose of this study was to report diving-related visual loss in the setting of angioid streaks. Observational case reports of two patients with angioid streaks suffering sudden visual loss immediately after diving. Two young adult male patients presented with visual loss after diving headfirst. Funduscopy revealed angioid streaks, peau d'orange, subretinal hemorrhages, and ruptures of Bruch membrane. Choroidal neovascularization developed during follow-up. Both patients had an otherwise uneventful personal and familial medical history. In patients with angioid streaks, diving headfirst can lead to subretinal hemorrhages and traumatic ruptures in Bruch membrane and increase the risk of maculopathy. Ophthalmologists should caution patients with angioid streaks against diving headfirst.

  17. Contributions to Logical Database Design

    Directory of Open Access Journals (Sweden)

    Vitalie COTELEA

    2012-01-01

    Full Text Available This paper treats the problems arising at the stage of logical database design. It comprises a synthesis of the most common inference models of functional dependencies, deals with the problems of building covers for sets of functional dependencies, makes a synthesizes of normal forms, presents trends regarding normalization algorithms and provides a temporal complexity of those. In addition, it presents a summary of the most known keys’ search algorithms, deals with issues of analysis and testing of relational schemes. It also summarizes and compares the different features of recognition of acyclic database schemas.

  18. Use of relational databases to evaluate regional petroleum accumulation, groundwater flow, and CO2 sequestration in Kansas

    Science.gov (United States)

    Carr, T.R.; Merriam, D.F.; Bartley, J.D.

    2005-01-01

    Large-scale relational databases and geographic information system tools are used to integrate temperature, pressure, and water geo-chemistry data from numerous wells to better understand regional-scale geothermal and hydrogeological regimes of the lower Paleozoic aquifer systems in the mid-continent and to evaluate their potential for geologic CO2 sequestration. The lower Paleozoic (Cambrian to Mississippian) aquifer systems in Kansas, Missouri, and Oklahoma comprise one of the largest regional-scale saline aquifer systems in North America. Understanding hydrologic conditions and processes of these regional-scale aquifer systems provides insight to the evolution of the various sedimentary basins, migration of hydrocarbons out of the Anadarko and Arkoma basins, and the distribution of Arbuckle petroleum reservoirs across Kansas and provides a basis to evaluate CO2 sequestration potential. The Cambrian and Ordovician stratigraphic units form a saline aquifer that is in hydrologic continuity with the freshwater recharge from the Ozark plateau and along the Nemaha anticline. The hydrologic continuity with areas of freshwater recharge provides an explanation for the apparent underpressure in the Arbuckle Group. Copyright ?? 2005. The American Association of Petroleum Geologists. All rights reserved.

  19. The effect of marital status on breast cancer-related outcomes in women under 65: A SEER database analysis.

    Science.gov (United States)

    Hinyard, Leslie; Wirth, Lorinette Saphire; Clancy, Jennifer M; Schwartz, Theresa

    2017-04-01

    Marital status is strongly associated with improved health and longevity. Being married has been shown to be positively associated with survival in patients with multiple different types of malignancy; however, little is known about the relationship between marital status and breast cancer in younger women. The purpose of this study is to investigate the effect of marital status on diagnosis, and survival of women under the age of 65 with breast cancer. The SEER 18 regions database was used to identify women between the ages of 25-64 diagnosed with invasive breast cancer in the years 2004-2009. Logistic regression was used to predict later stage diagnosis by marital status and Cox proportional hazards models were used to compare breast cancer-related and all-cause survival by marital status classification. Models were stratified by AJCC stage. After adjusting for age, race, and ER status, unmarried women were 1.18 times more likely to be diagnosed at a later stage than married women (95% CI 1.15, 1.20). In adjusted analysis unmarried women were more likely to die of breast cancer and more likely to die of all causes than married women across all AJCC stages. Younger unmarried women with breast cancer may benefit from additional counseling, psychosocial support and case management at the time of diagnosis to ensure their overall outcomes are optimized. Copyright © 2016 Elsevier Ltd. All rights reserved.

  20. Global coordination and standardisation in marine biodiversity through the World Register of Marine Species (WoRMS and related databases.

    Directory of Open Access Journals (Sweden)

    Mark J Costello

    Full Text Available The World Register of Marine Species is an over 90% complete open-access inventory of all marine species names. Here we illustrate the scale of the problems with species names, synonyms, and their classification, and describe how WoRMS publishes online quality assured information on marine species. Within WoRMS, over 100 global, 12 regional and 4 thematic species databases are integrated with a common taxonomy. Over 240 editors from 133 institutions and 31 countries manage the content. To avoid duplication of effort, content is exchanged with 10 external databases. At present WoRMS contains 460,000 taxonomic names (from Kingdom to subspecies, 368,000 species level combinations of which 215,000 are currently accepted marine species names, and 26,000 related but non-marine species. Associated information includes 150,000 literature sources, 20,000 images, and locations of 44,000 specimens. Usage has grown linearly since its launch in 2007, with about 600,000 unique visitors to the website in 2011, and at least 90 organisations from 12 countries using WoRMS for their data management. By providing easy access to expert-validated content, WoRMS improves quality control in the use of species names, with consequent benefits to taxonomy, ecology, conservation and marine biodiversity research and management. The service manages information on species names that would otherwise be overly costly for individuals, and thus minimises errors in the application of nomenclature standards. WoRMS' content is expanding to include host-parasite relationships, additional literature sources, locations of specimens, images, distribution range, ecological, and biological data. Species are being categorised as introduced (alien, invasive, of conservation importance, and on other attributes. These developments have a multiplier effect on its potential as a resource for biodiversity research and management. As a consequence of WoRMS, we are witnessing improved

  1. Global Coordination and Standardisation in Marine Biodiversity through the World Register of Marine Species (WoRMS) and Related Databases

    Science.gov (United States)

    Bouchet, Philippe; Boxshall, Geoff; Fauchald, Kristian; Gordon, Dennis; Hoeksema, Bert W.; Poore, Gary C. B.; van Soest, Rob W. M.; Stöhr, Sabine; Walter, T. Chad; Vanhoorne, Bart; Decock, Wim

    2013-01-01

    The World Register of Marine Species is an over 90% complete open-access inventory of all marine species names. Here we illustrate the scale of the problems with species names, synonyms, and their classification, and describe how WoRMS publishes online quality assured information on marine species. Within WoRMS, over 100 global, 12 regional and 4 thematic species databases are integrated with a common taxonomy. Over 240 editors from 133 institutions and 31 countries manage the content. To avoid duplication of effort, content is exchanged with 10 external databases. At present WoRMS contains 460,000 taxonomic names (from Kingdom to subspecies), 368,000 species level combinations of which 215,000 are currently accepted marine species names, and 26,000 related but non-marine species. Associated information includes 150,000 literature sources, 20,000 images, and locations of 44,000 specimens. Usage has grown linearly since its launch in 2007, with about 600,000 unique visitors to the website in 2011, and at least 90 organisations from 12 countries using WoRMS for their data management. By providing easy access to expert-validated content, WoRMS improves quality control in the use of species names, with consequent benefits to taxonomy, ecology, conservation and marine biodiversity research and management. The service manages information on species names that would otherwise be overly costly for individuals, and thus minimises errors in the application of nomenclature standards. WoRMS' content is expanding to include host-parasite relationships, additional literature sources, locations of specimens, images, distribution range, ecological, and biological data. Species are being categorised as introduced (alien, invasive), of conservation importance, and on other attributes. These developments have a multiplier effect on its potential as a resource for biodiversity research and management. As a consequence of WoRMS, we are witnessing improved communication within the

  2. Psychological, Relational, and Biological Correlates of Ego-Dystonic Masturbation in a Clinical Setting.

    Science.gov (United States)

    Castellini, Giovanni; Fanni, Egidia; Corona, Giovanni; Maseroli, Elisa; Ricca, Valdo; Maggi, Mario

    2016-09-01

    Attitudes toward masturbation are extremely varied, and this practice is often perceived with a sense of guilt. To evaluate the prevalence of ego-dystonic masturbation (EM), defined as masturbation activity followed by a sense of guilt, in a clinical setting of sexual medicine and the impact of EM on psychological and relational well-being. A series of 4,211 men attending an andrology and sexual medicine outpatient clinic was studied retrospectively. The presence and severity of EM were defined according to ANDROTEST items related to masturbation, determined by the mathematical product of the frequency of masturbation and the sense of guilt after masturbation. Clinical, biochemical, and psychological parameters were studied using the Structured Interview on Erectile Dysfunction, ANDROTEST, and modified Middlesex Hospital Questionnaire. Three hundred fifty-two subjects (8.4%) reported any sense of guilt after masturbation. Subjects with EM were younger than the remaining sample (mean age ± SD = 51.27 ± 13.43 vs 48.31 ± 12.04 years, P < .0001) and had more psychiatric comorbidities. EM severity was positively associated with higher free-floating (Wald = 35.94, P < .001) and depressive (Wald = 16.85, P < .001) symptoms, and subjects with a higher EM score reported less phobic anxiety (Wald = 4.02, P < .05) and obsessive-compulsive symptoms (Wald = 7.6, P < .01). A higher EM score was associated with a higher alcohol intake. Subjects with EM more often reported the partner's lower frequency of climax and more problems achieving an erection during sexual intercourse. EM severity was positively associated with worse relational and intrapsychic domain scores. Clinicians should consider that some subjects seeking treatment in a sexual medicine setting might report compulsive sexual behaviors. EM represents a clinically relevant cause of disability, given the high level of psychological distress reported by subjects with this condition, and the severe impact on

  3. The introduction of the personnel dosimetry information system in Greece designed as a relational database and the improvements achieved

    International Nuclear Information System (INIS)

    Drikos, G.; Psaromiligos, J.; Geotgiou, G.; Kamenopoulou, V.K.

    1997-01-01

    Dose record keeping is the making and keeping of personnel dose records for radiation workers. It is an essential part of the process of monitoring the exposure of individuals to radiation and shares in the same objectives. The dose record keeping is becoming more and more critical because of the importance of statistical analysis and epidemiological studies in radiation protection, and of the increasing cooperation and exchange of personnel between countries.The GAEC's personnel dosimetry laboratory assures the personnel dosimetry all over the country and keeps the official central dose record.The personnel dosimetry information system had been established in an electronic form on 1989 in Cobol language. Since then appeared various arguments that imposed the change of the data base used. Some of them are: 1. There was no distinction between establishments and their laboratories. 2. The workers did not have a unique code number. consequently, the total dose of a person working in more than one place could not't be estimated. The workers were directly related to their workplace, so if somebody changed his working place he was treated as a new entry, resulting an overestimation of the number of monitored workers introducing an source of errors in the collective and average dose calculations. 3. With the increasing applications of the ionising radiations many types of dosemeters became indispensable e.g. for beta and gamma, for neutrons and for the extremities. Also, the new category of outside workers appeared requesting a special treatment. All these distinctions were not achievable with the previous system. 4. Last years appeared an increasing, interesting in statistical analysis of the personal doses. A program written in Cobol does not't offer many possibilities and has no flexibility for such analysis. The new information system has been rebuilt under the design of a relational database with more possibilities and more flexibility. (authors)

  4. The incidence and prevalence of diabetes mellitus and related atherosclerotic complications in Korea: a National Health Insurance Database Study.

    Directory of Open Access Journals (Sweden)

    Bo Kyung Koo

    Full Text Available The incidence and prevalence of type 2 diabetes mellitus (T2DM and related macrovascular complications in Korea were estimated using the Health Insurance Review and Assessment (HIRA database from 2007-2011, which covers the claim data of 97.0% of the Korean population.T2DM, coronary artery disease (CAD, cerebrovascular disease (CVD, and peripheral artery disease (PAD were defined according to ICD-10 codes. We used the Healthcare Common Procedure Coding System codes provided by HIRA to identify associated procedures or surgeries. When calculating incidence, we excluded cases with preexisting T2DM within two years before the index year. A Poisson distribution was assumed when calculating 95% confidence intervals for prevalence and incidence rates.The prevalence of T2DM in Korean adults aged 20-89 years was 6.1-6.9% and the annual incidence rates of T2DM ranged from 9.5-9.8/1,000 person-year (PY during the study period. The incidence rates of T2DM in men and women aged 20-49 years showed decreasing patterns from 2009 to 2011 (P<0.001; by contrast, the incidence in subjects aged 70-79 years showed increased patterns from 2009 to 2011 (P<0.001. The incidence rates of CAD and CVD in patients newly diagnosed with T2DM were 18.84/1,000 PY and 11.32/1,000 PY, respectively, in the year of diagnosis. Among newly diagnosed individuals with T2DM who were undergoing treatment for PAD, 14.6% underwent angioplasty for CAD during the same period.Our study measured the national incidences of T2DM, CAD, CVD, and PAD, which are of great concern for public health. We also confirmed the relatively higher risk of CAD and CVD newly detected T2DM patients compared to the general population in Korea.

  5. Access and management of HIV-related diseases in resource-constrained settings: a workshop report.

    Science.gov (United States)

    Dimba, Eao; Yengopal, V; Joshua, E; Thavarajah, R; Balasundaram, S

    2016-04-01

    With advancement of medical interventions, the lifespan of people living with HIV has increased globally. However, low- and middle-income countries (LMICs) which bear the greatest burden of the HIV pandemic face a constant challenge in addressing the treatment needs of immune-suppressed patients. An analysis of the current management protocols and access to medication in resource-poor settings was conducted at this workshop, with emphasis on the situation in resource-poor settings. The participants developed a consensus document based on the need to respond to the constantly changing HIV pandemic. Provision of oral health care must be guided by interconnecting principles based on population based strategies that address upstream determinants of health. Basic oral health coverage in developing countries can only be realized with a strong foundation at the primary health level. Early diagnosis of HIV-related comorbidities including the adverse effects of ARVs is essential for the improvement of treatment outcomes. Standardization of oral health care delivery mechanisms will facilitate evaluation at national and regional levels. Oral health care workers have a moral obligation to participate in sustained campaigns to reduce the social stigma associated with HIV/AIDS in their work places at every stage of the referral chain. Future research also needs to realign itself towards prevention using the common risk factor approach, which has a broader impact on non-communicable diseases, which are increasingly affecting patients with HIV/AIDS as their life expectancies increase. © 2016 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

  6. Duration and setting of rural immersion during the medical degree relates to rural work outcomes.

    Science.gov (United States)

    O'Sullivan, Belinda; McGrail, Matthew; Russell, Deborah; Walker, Judi; Chambers, Helen; Major, Laura; Langham, Robyn

    2018-04-19

    Providing year-long rural immersion as part of the medical degree is commonly used to increase the number of doctors with an interest in rural practice. However, the optimal duration and setting of immersion has not been fully established. This paper explores associations between various durations and settings of rural immersion during the medical degree and whether doctors work in rural areas after graduation. Eligible participants were medical graduates of Monash University between 2008 and 2016 in postgraduate years 1-9, whose characteristics, rural immersion information and work location had been prospectively collected. Separate multiple logistic regression and multinomial logit regression models tested associations between the duration and setting of any rural immersion they did during the medical degree and (i) working in a rural area and (ii) working in large or smaller rural towns, in 2017. The adjusted odds of working in a rural area were significantly increased if students were immersed for one full year (odds ratio [OR], 1.79; 95% confidence interval [CI], 1.15-2.79), for between 1 and 2 years (OR, 2.26; 95% CI, 1.54-3.32) and for 2 or more years (OR, 4.43; 95% CI, 3.03-6.47) relative to no rural immersion. The strongest association was for immersion in a mix of both regional hospitals and rural general practice (OR, 3.26; 95% CI, 2.31-4.61), followed by immersion in regional hospitals only (OR, 1.94; 95% CI, 1.39-2.70) and rural general practice only (OR, 1.91; 95% CI, 1.06-3.45). More than 1 year's immersion in a mix of regional hospitals and rural general practices was associated with working in smaller regional or rural towns (immersion programmes. Longer rural immersion and immersion in both regional hospitals and rural general practices are likely to increase rural work and rural distribution of early career doctors. © 2018 John Wiley & Sons Ltd and The Association for the Study of Medical Education.

  7. Using affective knowledge to generate and validate a set of emotion-related, action words

    Directory of Open Access Journals (Sweden)

    Emma Portch

    2015-07-01

    Full Text Available Emotion concepts are built through situated experience. Abstract word meaning is grounded in this affective knowledge, giving words the potential to evoke emotional feelings and reactions (e.g., Vigliocco et al., 2009. In the present work we explore whether words differ in the extent to which they evoke ‘specific’ emotional knowledge. Using a categorical approach, in which an affective ‘context’ is created, it is possible to assess whether words proportionally activate knowledge relevant to different emotional states (e.g., ‘sadness’, ‘anger’, Stevenson, Mikels & James, 2007a. We argue that this method may be particularly effective when assessing the emotional meaning of action words (e.g., Schacht & Sommer, 2009. In study 1 we use a constrained feature generation task to derive a set of action words that participants associated with six, basic emotional states (see full list in Appendix S1. Generation frequencies were taken to indicate the likelihood that the word would evoke emotional knowledge relevant to the state to which it had been paired. In study 2 a rating task was used to assess the strength of association between the six most frequently generated, or ‘typical’, action words and corresponding emotion labels. Participants were presented with a series of sentences, in which action words (typical and atypical and labels were paired e.g., “If you are feeling ‘sad’ how likely would you be to act in the following way?” … ‘cry.’ Findings suggest that typical associations were robust. Participants always gave higher ratings to typical vs. atypical action word and label pairings, even when (a rating direction was manipulated (the label or verb appeared first in the sentence, and (b the typical behaviours were to be performed by the rater themselves, or others. Our findings suggest that emotion-related action words vary in the extent to which they evoke knowledge relevant for different emotional states. When

  8. Using affective knowledge to generate and validate a set of emotion-related, action words.

    Science.gov (United States)

    Portch, Emma; Havelka, Jelena; Brown, Charity; Giner-Sorolla, Roger

    2015-01-01

    Emotion concepts are built through situated experience. Abstract word meaning is grounded in this affective knowledge, giving words the potential to evoke emotional feelings and reactions (e.g., Vigliocco et al., 2009). In the present work we explore whether words differ in the extent to which they evoke 'specific' emotional knowledge. Using a categorical approach, in which an affective 'context' is created, it is possible to assess whether words proportionally activate knowledge relevant to different emotional states (e.g., 'sadness', 'anger', Stevenson, Mikels & James, 2007a). We argue that this method may be particularly effective when assessing the emotional meaning of action words (e.g., Schacht & Sommer, 2009). In study 1 we use a constrained feature generation task to derive a set of action words that participants associated with six, basic emotional states (see full list in Appendix S1). Generation frequencies were taken to indicate the likelihood that the word would evoke emotional knowledge relevant to the state to which it had been paired. In study 2 a rating task was used to assess the strength of association between the six most frequently generated, or 'typical', action words and corresponding emotion labels. Participants were presented with a series of sentences, in which action words (typical and atypical) and labels were paired e.g., "If you are feeling 'sad' how likely would you be to act in the following way?" … 'cry.' Findings suggest that typical associations were robust. Participants always gave higher ratings to typical vs. atypical action word and label pairings, even when (a) rating direction was manipulated (the label or verb appeared first in the sentence), and (b) the typical behaviours were to be performed by the rater themselves, or others. Our findings suggest that emotion-related action words vary in the extent to which they evoke knowledge relevant for different emotional states. When measuring affective grounding, it may then be

  9. Scale out databases for CERN use cases

    International Nuclear Information System (INIS)

    Baranowski, Zbigniew; Grzybek, Maciej; Canali, Luca; Garcia, Daniel Lanza; Surdy, Kacper

    2015-01-01

    Data generation rates are expected to grow very fast for some database workloads going into LHC run 2 and beyond. In particular this is expected for data coming from controls, logging and monitoring systems. Storing, administering and accessing big data sets in a relational database system can quickly become a very hard technical challenge, as the size of the active data set and the number of concurrent users increase. Scale-out database technologies are a rapidly developing set of solutions for deploying and managing very large data warehouses on commodity hardware and with open source software. In this paper we will describe the architecture and tests on database systems based on Hadoop and the Cloudera Impala engine. We will discuss the results of our tests, including tests of data loading and integration with existing data sources and in particular with relational databases. We will report on query performance tests done with various data sets of interest at CERN, notably data from the accelerator log database. (paper)

  10. IVR RSA Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This database contains trip-level reports submitted by vessels participating in Research Set-Aside projects with IVR reporting requirements.

  11. Glycated albumin is set lower in relation to plasma glucose levels in patients with Cushing's syndrome.

    Science.gov (United States)

    Kitamura, Tetsuhiro; Otsuki, Michio; Tamada, Daisuke; Tabuchi, Yukiko; Mukai, Kosuke; Morita, Shinya; Kasayama, Soji; Shimomura, Iichiro; Koga, Masafumi

    2013-09-23

    Glycated albumin (GA) is an indicator of glycemic control, which has some specific characters in comparison with HbA1c. Since glucocorticoids (GC) promote protein catabolism including serum albumin, GC excess state would influence GA levels. We therefore investigated GA levels in patients with Cushing's syndrome. We studied 16 patients with Cushing's syndrome (8 patients had diabetes mellitus and the remaining 8 patients were non-diabetic). Thirty-two patients with type 2 diabetes mellitus and 32 non-diabetic subjects matched for age, sex and BMI were used as controls. In the patients with Cushing's syndrome, GA was significantly correlated with HbA1c, but the regression line shifted downwards as compared with the controls. The GA/HbA1c ratio in the patients with Cushing's syndrome was also significantly lower than the controls. HbA1c in the non-diabetic patients with Cushing's syndrome was not different from the non-diabetic controls, whereas GA was significantly lower. In 7 patients with Cushing's syndrome who performed self-monitoring of blood glucose, the measured HbA1c was matched with HbA1c estimated from mean blood glucose, whereas the measured GA was significantly lower than the estimated GA. We clarified that GA is set lower in relation to plasma glucose levels in patients with Cushing's syndrome. Copyright © 2013 Elsevier B.V. All rights reserved.

  12. [Proposal of a method for collective analysis of work-related accidents in the hospital setting].

    Science.gov (United States)

    Osório, Claudia; Machado, Jorge Mesquita Huet; Minayo-Gomez, Carlos

    2005-01-01

    The article presents a method for the analysis of work-related accidents in hospitals, with the double aim of analyzing accidents in light of actual work activity and enhancing the vitality of the various professions that comprise hospital work. This process involves both research and intervention, combining knowledge output with training of health professionals, fostering expanded participation by workers in managing their daily work. The method consists of stimulating workers to recreate the situation in which a given accident occurred, shifting themselves to the position of observers of their own work. In the first stage of analysis, workers are asked to show the work analyst how the accident occurred; in the second stage, the work accident victim and analyst jointly record the described series of events in a diagram; in the third, the resulting record is re-discussed and further elaborated; in the fourth, the work accident victim and analyst evaluate and implement measures aimed to prevent the accident from recurring. The article concludes by discussing the method's possibilities and limitations in the hospital setting.

  13. Prognosis of white-coat and masked hypertension: International Database of HOme blood pressure in relation to Cardiovascular Outcome.

    Science.gov (United States)

    Stergiou, George S; Asayama, Kei; Thijs, Lutgarde; Kollias, Anastasios; Niiranen, Teemu J; Hozawa, Atsushi; Boggia, José; Johansson, Jouni K; Ohkubo, Takayoshi; Tsuji, Ichiro; Jula, Antti M; Imai, Yutaka; Staessen, Jan A

    2014-04-01

    Home blood pressure monitoring is useful in detecting white-coat and masked hypertension and is recommended for patients with suspected or treated hypertension. The prognostic significance of white-coat and masked hypertension detected by home measurement was investigated in 6458 participants from 5 populations enrolled in the International Database of HOme blood pressure in relation to Cardiovascular Outcomes. During a median follow-up of 8.3 years, 714 fatal plus nonfatal cardiovascular events occurred. Among untreated subjects (n=5007), cardiovascular risk was higher in those with white-coat hypertension (adjusted hazard ratio 1.42; 95% CI [1.06-1.91]; P=0.02), masked hypertension (1.55; 95% CI [1.12-2.14]; P<0.01) and sustained hypertension (2.13; 95% CI [1.66-2.73]; P<0.0001) compared with normotensive subjects. Among treated patients (n=1451), the cardiovascular risk did not differ between those with high office and low home blood pressure (white-coat) and treated controlled subjects (low office and home blood pressure; 1.16; 95% CI [0.79-1.72]; P=0.45). However, treated subjects with masked hypertension (low office and high home blood pressure; 1.76; 95% CI [1.23-2.53]; P=0.002) and uncontrolled hypertension (high office and home blood pressure; 1.40; 95% CI [1.02-1.94]; P=0.04) had higher cardiovascular risk than treated controlled patients. In conclusion, white-coat hypertension assessed by home measurements is a cardiovascular risk factor in untreated but not in treated subjects probably because the latter receive effective treatment on the basis of their elevated office blood pressure. In contrast, masked uncontrolled hypertension is associated with increased cardiovascular risk in both untreated and treated patients, who are probably undertreated because of their low office blood pressure.

  14. National Transportation Atlas Databases : 2012.

    Science.gov (United States)

    2012-01-01

    The National Transportation Atlas Databases 2012 (NTAD2012) is a set of nationwide geographic databases of transportation facilities, transportation networks, and associated infrastructure. These datasets include spatial information for transportatio...

  15. National Transportation Atlas Databases : 2011.

    Science.gov (United States)

    2011-01-01

    The National Transportation Atlas Databases 2011 (NTAD2011) is a set of nationwide geographic databases of transportation facilities, transportation networks, and associated infrastructure. These datasets include spatial information for transportatio...

  16. National Transportation Atlas Databases : 2009.

    Science.gov (United States)

    2009-01-01

    The National Transportation Atlas Databases 2009 (NTAD2009) is a set of nationwide geographic databases of transportation facilities, transportation networks, and associated infrastructure. These datasets include spatial information for transportatio...

  17. National Transportation Atlas Databases : 2010.

    Science.gov (United States)

    2010-01-01

    The National Transportation Atlas Databases 2010 (NTAD2010) is a set of nationwide geographic databases of transportation facilities, transportation networks, and associated infrastructure. These datasets include spatial information for transportatio...

  18. HIV-related stigma and psychological distress: the harmful effects of specific stigma manifestations in various social settings.

    Science.gov (United States)

    Stutterheim, Sarah E; Pryor, John B; Bos, Arjan E R; Hoogendijk, Robert; Muris, Peter; Schaalma, Herman P

    2009-11-13

    Recent research has shown that experiences of stigmatization have an adverse impact on the psychological well being of people living with HIV/AIDS (PLWHA). Most studies investigating this relationship employ an aggregate measure of stigma. Although this approach provides useful information about the psychological implications of HIV-related stigma in general, it neglects to acknowledge the possibility that some manifestations in specific settings may be psychologically more detrimental than others. The present study examines which specific stigma experiences are most strongly related to psychological distress across a number of social settings. A cross-sectional survey was administered to 667 PLWHA in the Netherlands. We examined participants' experiences of 11 manifestations of HIV-related stigma in six social settings. Linear regression analyses were conducted to determine which setting-specific manifestations best predict psychological distress after controlling for marital status, education and health status. Three manifestations in family settings, namely receiving advice to conceal one's status, being avoided and being treated with exaggerated kindness, and one manifestation in healthcare settings, namely awkward social interaction, best predicted psychological distress in PLWHA. Manifestations of HIV-related stigma vary according to setting. Certain manifestations in specific social settings impact the psychological well being of PLWHA more than others. In this study, certain experiences of stigmatization with PLWHA's families and in healthcare settings were more strongly related to psychological distress than experiences occurring in other social settings. These findings suggest that stigma reduction interventions focusing on these influential settings may benefit the psychological well being of PLWHA.

  19. A development and integration of the concentration database for relative method, k0 method and absolute method in instrumental neutron activation analysis using Microsoft Access

    International Nuclear Information System (INIS)

    Hoh Siew Sin

    2012-01-01

    Instrumental Neutron Activation Analysis (INAA) is offen used to determine and calculate the concentration of an element in the sample by the National University of Malaysia, especially students of Nuclear Science Program. The lack of a database service leads consumers to take longer time to calculate the concentration of an element in the sample. This is because we are more dependent on software that is developed by foreign researchers which are costly. To overcome this problem, a study has been carried out to build an INAA database software. The objective of this study is to build a database software that help the users of INAA in Relative Method and Absolute Method for calculating the element concentration in the sample using Microsoft Excel 2010 and Microsoft Access 2010. The study also integrates k 0 data, k 0 Concent and k 0 -Westcott to execute and complete the system. After the integration, a study was conducted to test the effectiveness of the database software by comparing the concentrations between the experiments and in the database. Triple Bare Monitor Zr-Au and Cr-Mo-Au were used in Abs-INAA as monitor to determine the thermal to epithermal neutron flux ratio (f). Calculations involved in determining the concentration are the net peak area (N p ), the measurement time (t m ), the irradiation time (t irr ), k-factor (k), thermal to epithermal neutron flux ratio (f), the parameters of the neutron flux distribution epithermal (α) and detection efficiency (ε p ). For Com-INAA databases, reference material IAEA-375 Soil was used to calculate the concentration of elements in the sample. CRM, SRM are also used in this database. After the INAA database integration, a verification process was to examine the effectiveness of the Abs-INAA was carried out by comparing the sample concentration between the in database and the experiment. The result of the experimental concentration value of INAA database software performed with high accuracy and precision. ICC

  20. Biofuel Database

    Science.gov (United States)

    Biofuel Database (Web, free access)   This database brings together structural, biological, and thermodynamic data for enzymes that are either in current use or are being considered for use in the production of biofuels.

  1. Community Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This excel spreadsheet is the result of merging at the port level of several of the in-house fisheries databases in combination with other demographic databases such...

  2. Is there a relation between the 2D Causal Set action and the Lorentzian Gauss-Bonnet theorem?

    Science.gov (United States)

    Benincasa, Dionigi M. T.

    2011-07-01

    We investigate the relation between the two dimensional Causal Set action, Script S, and the Lorentzian Gauss-Bonnet theorem (LGBT). We give compelling reasons why the answer to the title's question is no. In support of this point of view we calculate the causal set inspired action of causal intervals in some two dimensional spacetimes: Minkowski, the flat cylinder and the flat trousers.

  3. Is there a relation between the 2D Causal Set action and the Lorentzian Gauss-Bonnet theorem?

    International Nuclear Information System (INIS)

    Benincasa, Dionigi M T

    2011-01-01

    We investigate the relation between the two dimensional Causal Set action, S, and the Lorentzian Gauss-Bonnet theorem (LGBT). We give compelling reasons why the answer to the title's question is no. In support of this point of view we calculate the causal set inspired action of causal intervals in some two dimensional spacetimes: Minkowski, the flat cylinder and the flat trousers.

  4. Danish clinical databases: An overview

    DEFF Research Database (Denmark)

    Green, Anders

    2011-01-01

    Clinical databases contain data related to diagnostic procedures, treatments and outcomes. In 2001, a scheme was introduced for the approval, supervision and support to clinical databases in Denmark.......Clinical databases contain data related to diagnostic procedures, treatments and outcomes. In 2001, a scheme was introduced for the approval, supervision and support to clinical databases in Denmark....

  5. The relative importance of geophysical constraints, amenity values, and farm-related factors in the dynamics of grassland set-aside

    DEFF Research Database (Denmark)

    Odgaard, Mette Vestergaard; Moeslund, Jesper Erenskjold; Bøcher, Peder Klith

    2013-01-01

    This study aimed at quantifying the spatial distribution of set-aside – highly valuable biodiversity reservoirs – in a typical lowland agricultural region (Denmark), just before and after the set-aside policy change (years 2007 and 2008), to assess which factors drive farmers’ set-aside priorities......, and to elaborate the potential consequence of the set-aside spatial transformation from 2007 to 2008 on nature. Multiple regressions were used to test if and how set-aside is linked to three potential groups of drivers: (1) geophysical constraints (topographic and edaphic constraints on the farming......-suitability of an area), (2) amenity values (nature conservation and aesthetic values), and (3) farming-related factors (e.g., field size and livestock density). The spatial distribution of set-aside was influenced by both geophysical constraints and amenity values and only some extent farming-related factors. More...

  6. A methodology to compile food metrics related to diet sustainability into a single food database: Application to the French case.

    Science.gov (United States)

    Gazan, Rozenn; Barré, Tangui; Perignon, Marlène; Maillot, Matthieu; Darmon, Nicole; Vieux, Florent

    2018-01-01

    The holistic approach required to assess diet sustainability is hindered by lack of comprehensive databases compiling relevant food metrics. Those metrics are generally scattered in different data sources with various levels of aggregation hampering their matching. The objective was to develop a general methodology to compile food metrics describing diet sustainability dimensions into a single database and to apply it to the French context. Each step of the methodology is detailed: indicators and food metrics identification and selection, food list definition, food matching and values assignment. For the French case, nutrient and contaminant content, bioavailability factors, distribution of dietary intakes, portion sizes, food prices, greenhouse gas emission, acidification and marine eutrophication estimates were allocated to 212 commonly consumed generic foods. This generic database compiling 279 metrics will allow the simultaneous evaluation of the four dimensions of diet sustainability, namely health, economic, social and environmental, dimensions. Copyright © 2016 Elsevier Ltd. All rights reserved.

  7. College Students' Volunteering: Factors Related to Current Volunteering, Volunteer Settings, and Motives for Volunteering

    Science.gov (United States)

    Moore, Erin W.; Warta, Samantha; Erichsen, Kristen

    2014-01-01

    Research has not explored the types of settings that college students prefer to volunteer for and how these settings might be influenced by personal factors (e.g., demographic, academic major, volunteering motivation, religiosity). Students from a Midwestern university (N = 406, 71.9% female) completed a survey that inquired about their…

  8. From Theory to Practice: A Set of Garment-Related ESL Curriculum.

    Science.gov (United States)

    Chan, Ha Yin

    This document describes how a set of workplace literacy curricula was developed for Chinese garment workers in New York City. First, it discusses the goal of the workplace literacy program and the nature of the population served. Then, it proceeds to discuss rationale and research procedures of how the curriculum was being developed. A set of…

  9. An Interoperable Cartographic Database

    Directory of Open Access Journals (Sweden)

    Slobodanka Ključanin

    2007-05-01

    Full Text Available The concept of producing a prototype of interoperable cartographic database is explored in this paper, including the possibilities of integration of different geospatial data into the database management system and their visualization on the Internet. The implementation includes vectorization of the concept of a single map page, creation of the cartographic database in an object-relation database, spatial analysis, definition and visualization of the database content in the form of a map on the Internet. 

  10. Coordinating Mobile Databases: A System Demonstration

    OpenAIRE

    Zaihrayeu, Ilya; Giunchiglia, Fausto

    2004-01-01

    In this paper we present the Peer Database Management System (PDBMS). This system runs on top of the standard database management system, and it allows it to connect its database with other (peer) databases on the network. A particularity of our solution is that PDBMS allows for conventional database technology to be effectively operational in mobile settings. We think of database mobility as a database network, where databases appear and disappear spontaneously and their network access point...

  11. Age-related changes in visual exploratory behavior in a natural scene setting

    Directory of Open Access Journals (Sweden)

    Johanna eHamel

    2013-06-01

    Full Text Available Diverse cognitive functions decline with increasing age, including the ability to process central and peripheral visual information in a laboratory testing situation (useful visual field of view. To investigate whether and how this influences activities of daily life, we studied age-related changes in visual exploratory behavior in a natural scene setting: a driving simulator paradigm of variable complexity was tested in subjects of varying ages with simultaneous eye- and head-movement recordings via a head-mounted camera. Detection and reaction times were also measured by visual fixation and manual reaction. We considered video computer game experience as a possible influence on performance. Data of 73 participants of varying ages were analyzed, driving two different courses. We analyzed the influence of route difficulty level, age and eccentricity of test stimuli on oculomotor and driving behavior parameters. No significant age effects were found regarding saccadic parameters. In the older subjects head-movements increasingly contributed to gaze amplitude. More demanding courses and more peripheral stimuli locations, induced longer reaction times in all age groups. Deterioration of the functionally useful visual field of view with increasing age was not suggested in our study group. However, video game-experienced subjects revealed larger saccade amplitudes and a broader distribution of fixations on the screen. They reacted faster to peripheral objects suggesting the notion of a general detection task rather than perceiving driving as a central task. As the video game experienced population consisted of younger subjects, our study indicates that effects due to video game experience can easily be misinterpreted as age effects if not accounted for. We therefore view it as essential to consider video game experience in all testing methods using virtual media.

  12. The project on site - setting the scene for successful industrial relations

    International Nuclear Information System (INIS)

    Morris, D.; Kershaw, A.R.

    1989-01-01

    The site construction performance at Torness and Heysham 2 has been described in various other papers during the Conference and in common with other large projects undertaken over the last 20 years a final judgement will be made as to whether, in simple terms, they were ''good'' or ''bad'' sites. Although there are many individuals or organisations who may make this judgement, it is unlikely that the basic conclusion will differ. What may differ however is the list of reasons that will be advanced to explain the final result. Looking at the investigations made into past projects, the reasons advanced for their success or otherwise can range from the geographical location of the site to material delivery problems, design changes, safety issues, or even the state of the overall national economic climate during the period under scrutiny. Where industrial relations problems are singled out, they can usually be linked to one or more of the factors mentioned. When looking at the complexity of projects such as Torness and Heysham, it is to be expected that unlooked for difficulties and problems will always arise but it is equally true that there is sufficient experience and expertise available in the industry for many possible problem areas to be anticipated and ''designed'' out before work even commences on site. This paper will be looking at the clients' role in creating a suitable environment for contractors to fully manage all aspects of their site operation and to ensure that acute problems can receive the full attention of all parties and not have to be set against a continuing background of unnecessary irritations. (author)

  13. Age-related changes in visual exploratory behavior in a natural scene setting.

    Science.gov (United States)

    Hamel, Johanna; De Beukelaer, Sophie; Kraft, Antje; Ohl, Sven; Audebert, Heinrich J; Brandt, Stephan A

    2013-01-01

    Diverse cognitive functions decline with increasing age, including the ability to process central and peripheral visual information in a laboratory testing situation (useful visual field of view). To investigate whether and how this influences activities of daily life, we studied age-related changes in visual exploratory behavior in a natural scene setting: a driving simulator paradigm of variable complexity was tested in subjects of varying ages with simultaneous eye- and head-movement recordings via a head-mounted camera. Detection and reaction times were also measured by visual fixation and manual reaction. We considered video computer game experience as a possible influence on performance. Data of 73 participants of varying ages were analyzed, driving two different courses. We analyzed the influence of route difficulty level, age, and eccentricity of test stimuli on oculomotor and driving behavior parameters. No significant age effects were found regarding saccadic parameters. In the older subjects head-movements increasingly contributed to gaze amplitude. More demanding courses and more peripheral stimuli locations induced longer reaction times in all age groups. Deterioration of the functionally useful visual field of view with increasing age was not suggested in our study group. However, video game-experienced subjects revealed larger saccade amplitudes and a broader distribution of fixations on the screen. They reacted faster to peripheral objects suggesting the notion of a general detection task rather than perceiving driving as a central task. As the video game-experienced population consisted of younger subjects, our study indicates that effects due to video game experience can easily be misinterpreted as age effects if not accounted for. We therefore view it as essential to consider video game experience in all testing methods using virtual media.

  14. Radiation dose setting for sterilization of health care items in relation to product microbiological quality

    International Nuclear Information System (INIS)

    Norimah Yusof; Nagi Marsit; Asnah Hassan

    1997-01-01

    Radiation dose of 25 k gray is no longer a generally accepted dose for sterilization. ISO document no. 11137 stated that a manufacturer can decide the dose to sterilize his product depending on the product's microbiological quality (number and type of the contaminants) and the sterility assurance level (SAL) should attain in relation to its usage. Five health care products were selected for the microbiological studies including bio burden counts, identification of most commonly found microorganisms and the radioresistance (D sub 10 value) of the selected isolates. Radiation dose was then determined by two methods, namely Method for Dose Validation of ISO 11137, and calculation based on log survival or population cycle reduction. At a given SAL of 10 sup -6 the radiation sterilization dose obtained by both methods was influenced by microbiological quality of the product. Sterilization dose set by the ISO Method I (Cotton Ball 19.4 kGy, Syringe 20.4 kGy, Suture 15. 0 kGy, Surgical Glove 24.9 kGy and Amnion 17.8 kGy) was higher than the dose calculated according to the log cycle reduction concept in all the products (Cotton Ball 14. 0 kGy, Syringe 15.5 kGy, Suture 11. 6 kGy, Surgical Glove 18. 0 kGy and Amnion 12.6 kGy). The ISO method has limitation on bio products such as amnion and other high valued products which are produced in small number with low bio burden and microorganism spectrum different from those commonly found on medical items

  15. User's guide to FBASE: Relational database software for managing R1/R4 (Northern/Intermountain Regions) fish habitat inventory data

    Science.gov (United States)

    Sherry P. Wollrab

    1999-01-01

    FBASE is a microcomputer relational database package that handles data collected using the R1/R4 Fish and Fish Habitat Standard Inventory Procedures (Overton and others 1997). FBASE contains standard data entry screens, data validations for quality control, data maintenance features, and summary report options. This program also prepares data for importation into an...

  16. Project for a relational database for a radiotherapy service; Proyecto de una base de datos relacional para un servicio de radioterapia

    Energy Technology Data Exchange (ETDEWEB)

    Esposito, R. D.; Planes Meseguer, D.; Dorado Rodriguez, M. P.

    2011-07-01

    The aim of this work is to extract useful data easily to improve our working protocols and to evaluate quantitatively the results of the treatments. To do this you are implementing a database (DB) relational practice that allows the use of this information stored.

  17. Reliability and Validity of Survey Instruments to Measure Work-Related Fatigue in the Emergency Medical Services Setting: A Systematic Review.

    Science.gov (United States)

    Patterson, P Daniel; Weaver, Matthew D; Fabio, Anthony; Teasley, Ellen M; Renn, Megan L; Curtis, Brett R; Matthews, Margaret E; Kroemer, Andrew J; Xun, Xiaoshuang; Bizhanova, Zhadyra; Weiss, Patricia M; Sequeira, Denisse J; Coppler, Patrick J; Lang, Eddy S; Higgins, J Stephen

    2018-02-15

    This study sought to systematically search the literature to identify reliable and valid survey instruments for fatigue measurement in the Emergency Medical Services (EMS) occupational setting. A systematic review study design was used and searched six databases, including one website. The research question guiding the search was developed a priori and registered with the PROSPERO database of systematic reviews: "Are there reliable and valid instruments for measuring fatigue among EMS personnel?" (2016:CRD42016040097). The primary outcome of interest was criterion-related validity. Important outcomes of interest included reliability (e.g., internal consistency), and indicators of sensitivity and specificity. Members of the research team independently screened records from the databases. Full-text articles were evaluated by adapting the Bolster and Rourke system for categorizing findings of systematic reviews, and the rated data abstracted from the body of literature as favorable, unfavorable, mixed/inconclusive, or no impact. The Grading of Recommendations, Assessment, Development and Evaluation (GRADE) methodology was used to evaluate the quality of evidence. The search strategy yielded 1,257 unique records. Thirty-four unique experimental and non-experimental studies were determined relevant following full-text review. Nineteen studies reported on the reliability and/or validity of ten different fatigue survey instruments. Eighteen different studies evaluated the reliability and/or validity of four different sleepiness survey instruments. None of the retained studies reported sensitivity or specificity. Evidence quality was rated as very low across all outcomes. In this systematic review, limited evidence of the reliability and validity of 14 different survey instruments to assess the fatigue and/or sleepiness status of EMS personnel and related shift worker groups was identified.

  18. Goal setting in cancer rehabilitation and relation to quality of life among women with gynaecological cancer

    DEFF Research Database (Denmark)

    Holt, Kamila A; Mogensen, Ole; Jensen, Pernille T

    2015-01-01

    BACKGROUND: Rehabilitation should be integrated in the routine cancer care of women treated for gynaecological cancers. Goal setting is expected to facilitate the process through patient involvement and motivation. Our knowledge about goal setting in cancer rehabilitation is, however, sparse...... and emotional categories were the second and third most frequent among patients with endometrial and ovarian cancer. Sexual issues were dominant among the cervical cancer patients. Regression analysis showed significant association between quality of life scores and goal setting within the social and emotional...

  19. Hazard Analysis Database Report

    CERN Document Server

    Grams, W H

    2000-01-01

    The Hazard Analysis Database was developed in conjunction with the hazard analysis activities conducted in accordance with DOE-STD-3009-94, Preparation Guide for U S . Department of Energy Nonreactor Nuclear Facility Safety Analysis Reports, for HNF-SD-WM-SAR-067, Tank Farms Final Safety Analysis Report (FSAR). The FSAR is part of the approved Authorization Basis (AB) for the River Protection Project (RPP). This document describes, identifies, and defines the contents and structure of the Tank Farms FSAR Hazard Analysis Database and documents the configuration control changes made to the database. The Hazard Analysis Database contains the collection of information generated during the initial hazard evaluations and the subsequent hazard and accident analysis activities. The Hazard Analysis Database supports the preparation of Chapters 3 ,4 , and 5 of the Tank Farms FSAR and the Unreviewed Safety Question (USQ) process and consists of two major, interrelated data sets: (1) Hazard Analysis Database: Data from t...

  20. Categorization of ber varieties in relation to blooming period, fruit setting and harvesting time

    International Nuclear Information System (INIS)

    Sharif, N.; Abbas, M.M.; Ishfaq, M.; Memon, N.U.N.

    2013-01-01

    Thirty four local Ber varieties were evaluated at Horticultural Research Institute AARI, Faisalabad, Horticultural Research Station Bahawalpur (Punjab) and Jujube Research Station, Tandojam (Sindh). Traits viz. total period of blooming (dates), peak period of blooming (dates), total period of fruit set (dates), peak period of fruit set (dates), total period of fruit harvest (dates), peak period of fruit harvest (dates), total flowering days, peak flowering days, total fruit setting days, peak fruit setting days, total harvesting days and peak harvesting days were studied. The results revealed significant differences in parameters studied except total period of blooming under Tandojam, Sindh conditions. Varieties were classified as early, mid and late season for both provinces. Local varieties had potential for further manipulation in terms of variety improvement to attract growers for extensive ber cultivations under changing global climatic scenario. (author)

  1. Impact of Safety-Related Regulations on Codeine Use in Children: A Quasi-Experimental Study Using Taiwan's National Health Insurance Research Database.

    Science.gov (United States)

    Lin, Chih-Wan; Wang, Ching-Huan; Huang, Wei-I; Ke, Wei-Ming; Chao, Pi-Hui; Chen, Wen-Wen; Hsiao, Fei-Yuan

    2017-07-01

    Safety concerns regarding potential life-threatening adverse events associated with codeine have resulted in policy decisions to restrict its use in pediatrics. However, whether these drug safety communications have had an immediate and strong impact on codeine use remains in question. We aimed to investigate the impact of the two implemented safety-related regulations (label changes and reimbursement regulations) on the use of codeine for upper respiratory infection (URI) or cough. A quasi-experimental study was performed using Taiwan's National Health Insurance Research Database. Quarterly data of codeine prescription rates for URI/cough visits were reported, and an interrupted time series design was used to assess the impact of the safety regulations on the uses of codeine among children with URI/cough visits. Multivariable logistic regression models were used to explore patient and provider characteristics associated with the use of codeine. The safety-related regulations were associated with a significant reduction in codeine prescription rates of -4.24% (95% confidence interval [CI] -4.78 to -3.70), and the relative reduction compared with predicted rates based on preregulation projections was 60.4, 56.6, and 53.2% in the first, second, and third year after the regulations began, respectively. In the postregulation period, physicians specializing in otolaryngology (odds ratio [OR] 1.47, 95% CI 1.45-1.49), practicing in district hospitals (OR 6.84, 95% CI 5.82-8.04) or clinics (OR 6.50, 95% CI 5.54-7.62), and practicing in the least urbanized areas (OR 1.60, 95% CI 1.55-1.64) were more likely to prescribe codeine to children than their counterparts. Our study provides a successful example of how to effectively reduce the codeine prescriptions in children in the 'real-world' settings, and highlights areas where future effort could be made to improve the safety use of codeine. Future research is warranted to explore whether there was a simultaneous decrease in

  2. Nuclear data processing using a database management system

    International Nuclear Information System (INIS)

    Castilla, V.; Gonzalez, L.

    1991-01-01

    A database management system that permits the design of relational models was used to create an integrated database with experimental and evaluated nuclear data.A system that reduces the time and cost of processing was created for computers type EC or compatibles.A set of programs for the conversion from nuclear calculated data output format to EXFOR format was developed.A dictionary to perform a retrospective search in the ENDF database was created too

  3. Development of a refined database of relative potency estimates to facilitate better characterization of variability and uncertainty in the current mammalian TEFs for PCDDs, PCDFs, and dioxin-like PCBs

    Energy Technology Data Exchange (ETDEWEB)

    Haws, L. [Exponent, Austin, TX (United States); Harris, M.; Santamaria, A. [Exponent, Houston, TX (United States); Su, S. [Exponent, New York, NY (United States); Birnbaum, L.; DeVito, M. [U.S. Environmental Protection Agency, Research Triangle Park, NC (United States); Farland, W. [U.S. Environmental Protection Agency, Washington, DC (United States); Walker, N. [National Institute of Environmental Health Sciences, Research Triangle Park, NC (United States); Connor, K. [Exponent, Natick, MA (United States); Finley, B. [Exponent, Santa Rosa, CA (United States)

    2004-09-15

    The toxic equivalency factor (TEF) approach has been widely accepted as the most feasible and plausible method presently available for evaluating potential health risks associated with exposure to mixtures of polychlorinated dibenzo-p-dioxins (PCDDs), polychlorinated dibenzofurans (PCDFs), and dioxin-like polychlorinated biphenyls (PCBs). In accordance with this approach, the relative potency of each congener is expressed as some fraction of the potency of 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD). The current TEFs for PCDDs, PCDFs, and dioxin-like PCBs were established by the World Health Organization (WHO) following the meeting of an international expert panel in June of 1997. In the course of their review, the WHO expert panel examined data from an extensive body of in vivo and in vitro studies that had been compiled into a database of relative potency (REP) values by scientists at the Karolinska Institute in Stockholm, Sweden (hereafter referred to as the Karolinska database). The WHO TEFs are currently used by numerous governmental agencies and others to regulate or otherwise assess health risks associated with exposure to PCDD/Fs and dioxin-like PCBs in foods, consumer products, and environmental media. As has been noted by others, for any given congener, the underlying REP values typically represent a heterogeneous data set, and the range of REPs often spans several orders of magnitude. It would therefore be helpful to better understand the degree to which the TEF values contribute to variability and uncertainty in the risk assessment process. As such, the goal of this project was to develop a database that will better characterize the range of REPs, allow for the development and application of quantitative weighting schemes, and facilitate quantitative analyses. This in turn will allow for better characterization of variability and uncertainty inherent in the mammalian TEFs. The development of this database was necessary since the Karolinska database was

  4. Scale out databases for CERN use cases

    CERN Document Server

    Baranowski, Zbigniew; Canali, Luca; Garcia, Daniel Lanza; Surdy, Kacper

    2015-01-01

    Data generation rates are expected to grow very fast for some database workloads going into LHC run 2 and beyond. In particular this is expected for data coming from controls, logging and monitoring systems. Storing, administering and accessing big data sets in a relational database system can quickly become a very hard technical challenge, as the size of the active data set and the number of concurrent users increase. Scale-out database technologies are a rapidly developing set of solutions for deploying and managing very large data warehouses on commodity hardware and with open source software. In this paper we will describe the architecture and tests on database systems based on Hadoop and the Cloudera Impala engine. We will discuss the results of our tests, including tests of data loading and integration with existing data sources and in particular with relational databases. We will report on query performance tests done with various data sets of interest at CERN, notably data from the accelerator log dat...

  5. Bariatric surgery patients’ perceptions of weight-related stigma in healthcare settings impair post-surgery dietary adherence

    Directory of Open Access Journals (Sweden)

    Danielle M. Raves

    2016-10-01

    Full Text Available Background: Weight-related stigma is reported frequently by higher body-weight patients in healthcare settings. Bariatric surgery triggers profound weight loss. This weight loss may therefore alleviate patients’ experiences of weight-related stigma within healthcare settings. In non-clinical settings, weight-related stigma is associated with weight-inducing eating patterns. Dietary adherence is a major challenge after bariatric surgery.Objectives: (1 Evaluate the relationship between weight-related stigma and post-surgical dietary adherence; (2 understand if weight loss reduces weight-related stigma, thereby improving post-surgical dietary adherence; and (3 explore provider and patient perspectives on adherence and stigma in healthcare settings. Design: This mixed methods study contrasts survey responses from 300 postoperative bariatric patients with ethnographic data based on interviews with 35 patients and extensive multi-year participant-observation within a clinic setting. The survey measured experiences of weight-related stigma, including from healthcare professionals, on the Interpersonal Sources of Weight Stigma scale and internalized stigma based on the Weight Bias Internalization Scale. Dietary adherence measures included patient self-reports, non-disordered eating patterns reported on the Disordered Eating after Bariatric Surgery scale, and food frequencies. Regression was used to assess the relationships among post-surgical stigma, dietary adherence, and weight loss. Qualitative analyses consisted of thematic analysis.Results: The quantitative data show that internalized stigma and general experiences of weight-related stigma predict worse dietary adherence, even after weight is lost. The qualitative data show patients did not generally recognize this connection, and health professionals explained it as poor patient compliance.Conclusion: Reducing perceptions of weight-related stigma in healthcare settings and weight bias

  6. COMPARISON OF MEDICAL COSTS AND CARE OF APPENDECTOMY PATIENTS BETWEEN FEE-FOR-SERVICE AND SET FEE FOR DIAGNOSIS-RELATED GROUP SYSTEMS IN 20 CHINESE HOSPITALS.

    Science.gov (United States)

    Zhang, Yin-hua; He, Guo-ping; Liu, Jing-wei

    2016-09-01

    The objective of this study was to compare the fee-for-service and set fee for diagnosis-related group systems with regard to quality of medical care and cost to appendectomy patients. We conducted a retrospective study of 208 inpatients (from 20 hospitals) who undergone appendectomy in Changsha, China during 2013. Data were obtained from databases of medical insurance information systems directly connected to the hospital information systems. We collected and compared patient ages, length of study, and total medical costs for impatient appendectomies between patients using fee-for-service and set fee for diagnosisrelated group systems. One hundred thirty-three patients used the fee for service system and 75 used the set fee diagnosis related group system. For those using the diagnosis-related group system, the mean length of hospitalization (6.2 days) and mean number of prescribed antimicrobials (2.4) per patient were significantly lower than those of the patients who used the fee-for-service system (7.3 days and 3.0, respectively; p = 0.018; p < 0.05) and were accompanied by lower medical costs and cost of antimicrobials (RMB 2,518 versus RMB 4,484 and RMB476 versus RMB1,108, respectively; p = 0.000, p = 0.000). There were no significant differences in post-surgical complications between the two systems. The diagnosis-related group system had significantly medical costs for appendectomy compared to the fee-for-service system, without sacrificing quality of medical care.

  7. Psychological, Relational, and Biological Correlates of Ego-Dystonic Masturbation in a Clinical Setting

    Directory of Open Access Journals (Sweden)

    Giovanni Castellini, PhD, MD

    2016-09-01

    Conclusion: Clinicians should consider that some subjects seeking treatment in a sexual medicine setting might report compulsive sexual behaviors. EM represents a clinically relevant cause of disability, given the high level of psychological distress reported by subjects with this condition, and the severe impact on quality of life in interpersonal relationships.

  8. Database Description - Yeast Interacting Proteins Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Yeast Interacting Proteins Database Database Description General information of database Database... name Yeast Interacting Proteins Database Alternative name - DOI 10.18908/lsdba.nbdc00742-000 Creator C...-ken 277-8561 Tel: +81-4-7136-3989 FAX: +81-4-7136-3979 E-mail : Database classif...s cerevisiae Taxonomy ID: 4932 Database description Information on interactions and related information obta...l Acad Sci U S A. 2001 Apr 10;98(8):4569-74. Epub 2001 Mar 13. External Links: Original website information Database

  9. Is there a relation between the 2D Causal Set action and the Lorentzian Gauss-Bonnet theorem?

    Energy Technology Data Exchange (ETDEWEB)

    Benincasa, Dionigi M T, E-mail: db1808@ic.ac.uk [Theoretical Physics Group, Blackett Laboratory, Imperial College, Prince Consort Rd., London SW7 2AZ (United Kingdom)

    2011-07-08

    We investigate the relation between the two dimensional Causal Set action, S, and the Lorentzian Gauss-Bonnet theorem (LGBT). We give compelling reasons why the answer to the title's question is no. In support of this point of view we calculate the causal set inspired action of causal intervals in some two dimensional spacetimes: Minkowski, the flat cylinder and the flat trousers.

  10. Weekend admission to hospital has a higher risk of death in the elective setting than in the emergency setting: a retrospective database study of national health service hospitals in England

    Directory of Open Access Journals (Sweden)

    Mohammed Mohammed A

    2012-04-01

    Full Text Available Abstract Background Although acute hospitals offer a twenty-four hour seven day a week service levels of staffing are lower over the weekends and some health care processes may be less readily available over the weekend. Whilst it is thought that emergency admission to hospital on the weekend is associated with an increased risk of death, the extent to which this applies to elective admissions is less well known. We investigated the risk of death in elective and elective patients admitted over the weekend versus the weekdays. Methods Retrospective statistical analysis of routinely collected acute hospital admissions in England, involving all patient discharges from all acute hospitals in England over a year (April 2008-March 2009, using a logistic regression model which adjusted for a range of patient case-mix variables, seasonality and admission over a weekend separately for elective and emergency (but excluding zero day stay emergency admissions discharged alive admissions. Results Of the 1,535,267 elective admissions, 91.7% (1,407,705 were admitted on the weekday and 8.3% (127,562 were admitted on the weekend. The mortality following weekday admission was 0.52% (7,276/1,407,705 compared with 0.77% (986/127,562 following weekend admission. Of the 3,105,249 emergency admissions, 76.3% (2,369,316 were admitted on the weekday and 23.7% (735,933 were admitted on the weekend. The mortality following emergency weekday admission was 6.53% (154,761/2,369,316 compared to 7.06% (51,922/735,933 following weekend admission. After case-mix adjustment, weekend admissions were associated with an increased risk of death, especially in the elective setting (elective Odds Ratio: 1.32, 95% Confidence Interval 1.23 to 1.41; vs emergency Odds Ratio: 1.09, 95% Confidence Interval 1.05 to 1.13. Conclusions Weekend admission appears to be an independent risk factor for dying in hospital and this risk is more pronounced in the elective setting. Given the planned

  11. Field theoretical construction of an infinite set of quantum commuting operators related with soliton equations

    International Nuclear Information System (INIS)

    Sasaki, Ryu; Yamanaka, Itaru

    1987-01-01

    The quantum version of an infinite set of polynomial conserved quantities of a class of soliton equations is discussed from the point of view of naive continuum field theory. By using techniques of two dimensional field theories, we show that an infinite set of quantum commuting operators can be constructed explicitly from the knowledge of its classical counterparts. The quantum operators are so constructed as to coincide with the classical ones in the ℎ → 0 limit (ℎ; Planck's constant divided by 2π). It is expected that the explicit forms of these operators would shed some light on the structure of the infinite dimensional Lie algebras which underlie a certain class of quantum integrable systems. (orig.)

  12. Field theoretical construction of an infinite set of quantum commuting operators related with soliton equations

    International Nuclear Information System (INIS)

    Sasaki, Ryu; Yamanaka, Itaru.

    1986-08-01

    The quantum version of an infinite set of polynomial conserved quantities of a class of soliton equations is discussed from the point of view of naive continuum field theory. By using techniques of two dimensional field theories, we show that an infinite set of quantum commuting operators can be constructed explicitly from the knowledge of its classical counterparts. The quantum operators are so constructed as to coincide with the classical ones in the ℎ → 0 limit (ℎ; Planck's constant divided by 2π). It is expected that the explicit forms of these operators would shed some light on the structure of the infinite dimensional Lie algebras which underlie certain class of quantum integrable systems. (author)

  13. Exploring the function and effectiveness of knowledge brokers as facilitators of knowledge translation in health-related settings: a systematic review and thematic analysis.

    Science.gov (United States)

    Bornbaum, Catherine C; Kornas, Kathy; Peirson, Leslea; Rosella, Laura C

    2015-11-20

    Knowledge brokers (KBs) work collaboratively with key stakeholders to facilitate the transfer and exchange of information in a given context. Currently, there is a perceived lack of evidence about the effectiveness of knowledge brokering and the factors that influence its success as a knowledge translation (KT) mechanism. Thus, the goal of this review was to systematically gather evidence regarding the nature of knowledge brokering in health-related settings and determine if KBs effectively contributed to KT in these settings. A systematic review was conducted using a search strategy designed by a health research librarian. Eight electronic databases (MEDLINE, Embase, PsycINFO, CINAHL, ERIC, Scopus, SocINDEX, and Health Business Elite) and relevant grey literature sources were searched using English language restrictions. Two reviewers independently screened the abstracts, reviewed full-text articles, extracted data, and performed quality assessments. Analysis included a confirmatory thematic approach. To be included, studies must have occurred in a health-related setting, reported on an actual application of knowledge brokering, and be available in English. In total, 7935 records were located. Following removal of duplicates, 6936 abstracts were screened and 240 full-text articles were reviewed. Ultimately, 29 articles, representing 22 unique studies, were included in the thematic analysis. Qualitative (n = 18), quantitative (n = 1), and mixed methods (n = 6) designs were represented in addition to grey literature sources (n = 4). Findings indicated that KBs performed a diverse range of tasks across multiple health-related settings; results supported the KB role as a 'knowledge manager', 'linkage agent', and 'capacity builder'. Our systematic review explored outcome data from a subset of studies (n = 8) for evidence of changes in knowledge, skills, and policies or practices related to knowledge brokering. Two studies met standards for

  14. 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

    Directory of Open Access Journals (Sweden)

    S. C. Truckenbrodt

    2018-03-01

    Full Text Available 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.

  15. 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

    Science.gov (United States)

    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).

  16. Health-related physical fitness assessment in a community-based cancer rehabilitation setting.

    Science.gov (United States)

    Kirkham, Amy A; Neil-Sztramko, Sarah E; Morgan, Joanne; Hodson, Sara; Weller, Sarah; McRae, Tasha; Campbell, Kristin L

    2015-09-01

    Assessment of physical fitness is important in order to set goals, appropriately prescribe exercise, and monitor change over time. This study aimed to determine the utility of a standardized physical fitness assessment for use in cancer-specific, community-based exercise programs. Tests anticipated to be feasible and suitable for a community setting and a wide range of ages and physical function were chosen to measure body composition, aerobic fitness, strength, flexibility, and balance. Cancer Exercise Trainers/Specialists at cancer-specific, community-based exercise programs assessed new clients (n = 60) at enrollment, designed individualized exercise programs, and then performed a re-assessment 3-6 months later (n = 34). Resting heart rate, blood pressure, body mass index, waist circumference, handgrip strength, chair stands, sit-and-reach, back scratch, single-leg standing, and timed up-and-go tests were considered suitable and feasible tests/measures, as they were performed in most (≥88 %) participants. The ability to capture change was also noted for resting blood pressure (-7/-5 mmHg, p = 0.02), chair stands (+4, p exercise program setting. However, a shorter treadmill protocol and more sensitive balance and upper body flexibility tests should be investigated.

  17. An Investigation of Mathematical Knowledge Related to Mathematics Teachers' Basic Concepts in Sets Unit

    Directory of Open Access Journals (Sweden)

    Nurullah YAZICI

    2017-05-01

    Full Text Available This research was conducted in order to examine the subject matter of Mathematics teachers in the context of "Mathematical Knowledge For Teaching" (MKT model of "Basic Concepts in Sets" which is the first topic of the 9th class "Sets". The study group, which is one of the qualitative research methods, used the case study design, constitutes 5 mathematics teachers who work in different education levels (primary and secondary education in the academic year of 2015-2016. Open-ended questions and semi-structured interview form developed by the researcher were used for data collection. A descriptive analysis technique was used to analyze the data obtained through interviews. While analyzing the data, teacher and student textbooks, which were prepared by the Ministry of National Education for the purpose of teaching in 2015-2016 academic year, were taken as a reference. According to the research findings, it was determined that the teachers had deficiencies in the subject field of "Basic Concepts in the Sets" and had superficial knowledge rather than in depth knowledge.

  18. Federal databases

    International Nuclear Information System (INIS)

    Welch, M.J.; Welles, B.W.

    1988-01-01

    Accident statistics on all modes of transportation are available as risk assessment analytical tools through several federal agencies. This paper reports on the examination of the accident databases by personal contact with the federal staff responsible for administration of the database programs. This activity, sponsored by the Department of Energy through Sandia National Laboratories, is an overview of the national accident data on highway, rail, air, and marine shipping. For each mode, the definition or reporting requirements of an accident are determined and the method of entering the accident data into the database is established. Availability of the database to others, ease of access, costs, and who to contact were prime questions to each of the database program managers. Additionally, how the agency uses the accident data was of major interest

  19. Database for the geologic map of upper Eocene to Holocene volcanic and related rocks in the Cascade Range, Washington

    Science.gov (United States)

    Barron, Andrew D.; Ramsey, David W.; Smith, James G.

    2014-01-01

    This geospatial database for a geologic map of the Cascades Range in Washington state is one of a series of maps that shows Cascade Range geology by fitting published and unpublished mapping into a province-wide scheme of lithostratigraphic units. Geologic maps of the Eocene to Holocene Cascade Range in California and Oregon complete the series, providing a comprehensive geologic map of the entire Cascade Range that incorporates modern field studies and that has a unified and internally consistent explanantion. The complete series will be useful for regional studies of volcanic hazards, volcanology, and tectonics.

  20. Multidimensional Databases and Data Warehousing

    CERN Document Server

    Jensen, Christian

    2010-01-01

    The present book's subject is multidimensional data models and data modeling concepts as they are applied in real data warehouses. The book aims to present the most important concepts within this subject in a precise and understandable manner. The book's coverage of fundamental concepts includes data cubes and their elements, such as dimensions, facts, and measures and their representation in a relational setting; it includes architecture-related concepts; and it includes the querying of multidimensional databases.The book also covers advanced multidimensional concepts that are considered to b

  1. Influence of contact definitions in assessment of the relative importance of social settings in disease transmission risk.

    Directory of Open Access Journals (Sweden)

    Kirsty J Bolton

    Full Text Available BACKGROUND: Realistic models of disease transmission incorporating complex population heterogeneities require input from quantitative population mixing studies. We use contact diaries to assess the relative importance of social settings in respiratory pathogen spread using three measures of person contact hours (PCH as proxies for transmission risk with an aim to inform bipartite network models of respiratory pathogen transmission. METHODS AND FINDINGS: Our survey examines the contact behaviour for a convenience sample of 65 adults, with each encounter classified as occurring in a work, retail, home, social, travel or "other" setting. The diary design allows for extraction of PCH-interaction (cumulative time in face-face conversational or touch interaction with contacts--analogous to the contact measure used in several existing surveys--as well as PCH-setting (product of time spent in setting and number of people present and PCH-reach (product of time spent in setting and number of people in close proximity. Heterogeneities in day-dependent distribution of risk across settings are analysed using partitioning and cluster analyses and compared between days and contact measures. Although home is typically the highest-risk setting when PCH measures isolate two-way interactions, its relative importance compared to social and work settings may reduce when adopting a more inclusive contact measure that considers the number and duration of potential exposure events. CONCLUSIONS: Heterogeneities in location-dependent contact behaviour as measured by contact diary studies depend on the adopted contact definition. We find that contact measures isolating face-face conversational or touch interactions suggest that contact in the home dominates, whereas more inclusive contact measures indicate that home and work settings may be of higher importance. In the absence of definitive knowledge of the contact required to facilitate transmission of various

  2. Database principles programming performance

    CERN Document Server

    O'Neil, Patrick

    2014-01-01

    Database: Principles Programming Performance provides an introduction to the fundamental principles of database systems. This book focuses on database programming and the relationships between principles, programming, and performance.Organized into 10 chapters, this book begins with an overview of database design principles and presents a comprehensive introduction to the concepts used by a DBA. This text then provides grounding in many abstract concepts of the relational model. Other chapters introduce SQL, describing its capabilities and covering the statements and functions of the programmi

  3. Towards Sensor Database Systems

    DEFF Research Database (Denmark)

    Bonnet, Philippe; Gehrke, Johannes; Seshadri, Praveen

    2001-01-01

    . These systems lack flexibility because data is extracted in a predefined way; also, they do not scale to a large number of devices because large volumes of raw data are transferred regardless of the queries that are submitted. In our new concept of sensor database system, queries dictate which data is extracted...... from the sensors. In this paper, we define the concept of sensor databases mixing stored data represented as relations and sensor data represented as time series. Each long-running query formulated over a sensor database defines a persistent view, which is maintained during a given time interval. We...... also describe the design and implementation of the COUGAR sensor database system....

  4. Dictionary as Database.

    Science.gov (United States)

    Painter, Derrick

    1996-01-01

    Discussion of dictionaries as databases focuses on the digitizing of The Oxford English dictionary (OED) and the use of Standard Generalized Mark-Up Language (SGML). Topics include the creation of a consortium to digitize the OED, document structure, relational databases, text forms, sequence, and discourse. (LRW)

  5. National Database of Geriatrics

    DEFF Research Database (Denmark)

    Kannegaard, Pia Nimann; Vinding, Kirsten L; Hare-Bruun, Helle

    2016-01-01

    AIM OF DATABASE: The aim of the National Database of Geriatrics is to monitor the quality of interdisciplinary diagnostics and treatment of patients admitted to a geriatric hospital unit. STUDY POPULATION: The database population consists of patients who were admitted to a geriatric hospital unit....... Geriatric patients cannot be defined by specific diagnoses. A geriatric patient is typically a frail multimorbid elderly patient with decreasing functional ability and social challenges. The database includes 14-15,000 admissions per year, and the database completeness has been stable at 90% during the past......, percentage of discharges with a rehabilitation plan, and the part of cases where an interdisciplinary conference has taken place. Data are recorded by doctors, nurses, and therapists in a database and linked to the Danish National Patient Register. DESCRIPTIVE DATA: Descriptive patient-related data include...

  6. Patient perceptions of surgeon-industry relations in a military setting.

    Science.gov (United States)

    Ortiz, Dionisio; Jenne, Joel

    2014-12-01

    Investigations into the financial relationships between orthopedic surgeons and device manufacturers have recently been investigated. Despite these investigations, the public appears to maintain trust and confidence that their surgeons are acting in patients' best interest. However, patient perceptions of these relationships have not been investigated in a military treatment setting. We surveyed patients' perception of the surgeon-industry relationship in a single military treatment facility. From March 2012 to March 2013, we surveyed 282 preoperative and postoperative spine and arthroplasty patients in a single military treatment facility. Patients were eligible if they were adult TRICARE beneficiaries being followed in one of those clinics and within the age requirements. Most patients were aware of private industry involvement in the manufacture of orthopedic implants (77%). Most patients thought that it was beneficial for surgeons to serve in an advisory role to device companies (81%) and most (65%) felt that the relationship was appropriate and beneficial for patient care. A minority (29%) felt their surgeon should receive payment for this role. Most patients in the military setting had a positive view of the relationship that their surgeons had with industry, which is reflective of data obtained in the civilian literature. Reprint & Copyright © 2014 Association of Military Surgeons of the U.S.

  7. Monitoring the health-related labelling of foods and non-alcoholic beverages in retail settings.

    Science.gov (United States)

    Rayner, M; Wood, A; Lawrence, M; Mhurchu, C N; Albert, J; Barquera, S; Friel, S; Hawkes, C; Kelly, B; Kumanyika, S; L'abbé, M; Lee, A; Lobstein, T; Ma, J; Macmullan, J; Mohan, S; Monteiro, C; Neal, B; Sacks, G; Sanders, D; Snowdon, W; Swinburn, B; Vandevijvere, S; Walker, C

    2013-10-01

    Food labelling on food packaging has the potential to have both positive and negative effects on diets. Monitoring different aspects of food labelling would help to identify priority policy options to help people make healthier food choices. A taxonomy of the elements of health-related food labelling is proposed. A systematic review of studies that assessed the nature and extent of health-related food labelling has been conducted to identify approaches to monitoring food labelling. A step-wise approach has been developed for independently assessing the nature and extent of health-related food labelling in different countries and over time. Procedures for sampling the food supply, and collecting and analysing data are proposed, as well as quantifiable measurement indicators and benchmarks for health-related food labelling. © 2013 The Authors. Obesity Reviews published by John Wiley & Sons Ltd on behalf of the International Association for the Study of Obesity.

  8. Database Replication

    CERN Document Server

    Kemme, Bettina

    2010-01-01

    Database replication is widely used for fault-tolerance, scalability and performance. The failure of one database replica does not stop the system from working as available replicas can take over the tasks of the failed replica. Scalability can be achieved by distributing the load across all replicas, and adding new replicas should the load increase. Finally, database replication can provide fast local access, even if clients are geographically distributed clients, if data copies are located close to clients. Despite its advantages, replication is not a straightforward technique to apply, and

  9. Refactoring databases evolutionary database design

    CERN Document Server

    Ambler, Scott W

    2006-01-01

    Refactoring has proven its value in a wide range of development projects–helping software professionals improve system designs, maintainability, extensibility, and performance. Now, for the first time, leading agile methodologist Scott Ambler and renowned consultant Pramodkumar Sadalage introduce powerful refactoring techniques specifically designed for database systems. Ambler and Sadalage demonstrate how small changes to table structures, data, stored procedures, and triggers can significantly enhance virtually any database design–without changing semantics. You’ll learn how to evolve database schemas in step with source code–and become far more effective in projects relying on iterative, agile methodologies. This comprehensive guide and reference helps you overcome the practical obstacles to refactoring real-world databases by covering every fundamental concept underlying database refactoring. Using start-to-finish examples, the authors walk you through refactoring simple standalone databas...

  10. Associations between the settings of exercise habits and health-related outcomes in community-dwelling older adults

    OpenAIRE

    Makino, Keitaro; Ihira, Hikaru; Mizumoto, Atsushi; Shimizu, Kotaro; Ishida, Toyoaki; Furuna, Taketo

    2015-01-01

    [Purpose] The purpose of this study was to examine the associations between the settings of exercise habits and health-related outcomes in community-dwelling older adults. [Subjects] A total of 304 Japanese community-dwelling older adults (70.3 ? 4.1?years; 113 males and 191 females) participated in this study. [Methods] Demographic characteristics, medical conditions, exercise habits, and health-related outcomes were assessed by face-to-face interviews and self-reported questionnaires. Older...

  11. Bridging international law and rights-based litigation: mapping health-related rights through the development of the Global Health and Human Rights Database.

    Science.gov (United States)

    Meier, Benjamin Mason; Cabrera, Oscar A; Ayala, Ana; Gostin, Lawrence O

    2012-06-15

    The O'Neill Institute for National and Global Health Law at Georgetown University, the World Health Organization, and the Lawyers Collective have come together to develop a searchable Global Health and Human Rights Database that maps the intersection of health and human rights in judgments, international and regional instruments, and national constitutions. Where states long remained unaccountable for violations of health-related human rights, litigation has arisen as a central mechanism in an expanding movement to create rights-based accountability. Facilitated by the incorporation of international human rights standards in national law, this judicial enforcement has supported the implementation of rights-based claims, giving meaning to states' longstanding obligations to realize the highest attainable standard of health. Yet despite these advancements, there has been insufficient awareness of the international and domestic legal instruments enshrining health-related rights and little understanding of the scope and content of litigation upholding these rights. As this accountability movement evolves, the Global Health and Human Rights Database seeks to chart this burgeoning landscape of international instruments, national constitutions, and judgments for health-related rights. Employing international legal research to document and catalogue these three interconnected aspects of human rights for the public's health, the Database's categorization by human rights, health topics, and regional scope provides a comprehensive means of understanding health and human rights law. Through these categorizations, the Global Health and Human Rights Database serves as a basis for analogous legal reasoning across states to serve as precedents for future cases, for comparative legal analysis of similar health claims in different country contexts, and for empirical research to clarify the impact of human rights judgments on public health outcomes. Copyright © 2012 Meier, Nygren

  12. Automatic activation of alcohol cues by child maltreatment related words: a replication attempt in a different treatment setting.

    Science.gov (United States)

    Potthast, Nadine; Neuner, Frank; Catani, Claudia

    2017-01-03

    A growing body of research attempts to clarify the underlying mechanisms of the association between emotional maltreatment and alcohol dependence (AD). In a preceding study, we found considerable support for a specific priming effect in subjects with AD and emotional abuse experiences receiving alcohol rehabilitation treatment. We concluded that maltreatment related cues can automatically activate an associative memory network comprising cues eliciting craving as well as alcohol-related responses. Generalizability of the results to other treatment settings remains unclear because of considerable differences in German treatment settings as well as insufficiently clarified influences of selection effects. As replication studies in other settings are necessary, the current study aimed to replicate the specific priming effect in a qualified detoxification sample. 22 AD subjects (n = 10 with emotional abuse vs. n = 12 without emotional abuse) participated in a priming experiment. Comparison data from 34 healthy control subjects were derived from the prior study. Contrary to our hypothesis, we did not find a specific priming effect. We could not replicate the result of an automatic network activation by maltreatment related words in a sample of subjects with AD and emotional abuse experiences receiving qualified detoxification treatment. This discrepancy might be attributed to reasons related to treatment settings as well as to methodological limitations. Future work is required to determine the generalizability of the specific priming effect before valid conclusions regarding automatic activation can be drawn.

  13. Palliative care for cancer patients in a primary health care setting:Bereaved relatives' experience, a qualitative group interview study

    DEFF Research Database (Denmark)

    Neergaard, Mette Asbjørn; Olesen, Frede; Jensen, Anders Bonde

    2008-01-01

    care setting to explore barriers and facilitators for delivery of good palliative home care. Methods: Three focus group interviews with fourteen bereaved relatives in Aarhus County, Denmark. Results: Three main categories of experience were identified: 1) The health professionals' management, where...

  14. Characterization of the order relation on the set of completely n-positive linear maps between C*-algebras

    Directory of Open Access Journals (Sweden)

    Maria Joita

    2007-12-01

    Full Text Available In this paper we characterize the order relation on the set of all nondegenerate completely n-positive linear maps between C*-algebras in terms of a self-dual Hilbert module induced by each completely n-positive linear map.

  15. Rehabilitation-Related Research on Disability and Employer Practices Using Individual-Based National and Administrative Data Sets

    Science.gov (United States)

    Nazarov, Zafar E.; Erickson, William A.; Bruyère, Susanne M.

    2014-01-01

    Objective: It is useful to examine workplace factors influencing employment outcomes of individuals with disabilities and the interplay of disability, employment-related, and employer characteristics to inform rehabilitation practice. Design: A number of large national survey and administrative data sets provide information on employers and can…

  16. Nuclear technology databases and information network systems

    International Nuclear Information System (INIS)

    Iwata, Shuichi; Kikuchi, Yasuyuki; Minakuchi, Satoshi

    1993-01-01

    This paper describes the databases related to nuclear (science) technology, and information network. Following contents are collected in this paper: the database developed by JAERI, ENERGY NET, ATOM NET, NUCLEN nuclear information database, INIS, NUclear Code Information Service (NUCLIS), Social Application of Nuclear Technology Accumulation project (SANTA), Nuclear Information Database/Communication System (NICS), reactor materials database, radiation effects database, NucNet European nuclear information database, reactor dismantling database. (J.P.N.)

  17. Influence of Japanese Regulatory Action on Denosumab-Related Hypocalcemia Using Japanese Adverse Drug Event Report Database.

    Science.gov (United States)

    Takeyama, Mayu; Sai, Kimie; Imatoh, Takuya; Segawa, Katsunori; Hirasawa, Noriyasu; Saito, Yoshiro

    2017-01-01

    The anti-receptor activator of nuclear factor kappa-B ligand (RANKL) antibody, Denosumab (DEN), was approved in April 2012 in Japan, but a Dear Healthcare Professional Letter of Rapid Safety Communication was released in September, 2012 by the regulatory authority because of the severe hypocalcemia risks. Currently, the effectiveness of this regulatory action has not been evaluated and, therefore, this study aimed to assess its impact on DEN-induced hypocalcemia using the Japanese Adverse Drug Event Report database (JADER). The case reports from April 2012 to September 2014 were collected from the JADER, which included 151642 adverse events for the primary suspected drugs. The reporting odds ratio (ROR) of hypocalcemia as a signal of the target adverse event was analyzed for DEN and zoledronic acid (ZOL, a reference drug). Changes in RORs were compared between the pre- (Pre, April 2012 to September 2012) and post- (Post 1, October 2012 to September 2013 and Post 2, October 2013 to September 2014) periods of the regulatory action. A decrease in the hypocalcemia ROR was observed for DEN in the post-periods, especially Post 2. Multivariate logistic regression analysis showed a significant decrease in hypocalcemia signal in Post 1 (p=0.0306 vs. Pre) and Post 2 (p=0.0054 vs. Pre). ZOL caused no significant changes in ROR of hypocalcemia, and none of the drugs caused ROR changes in jaw osteonecrosis (a reference adverse event). This study suggests that the regulatory action against hypocalcemia in DEN effectively decreased hypocalcemia signal. Further studies using medical information databases are needed to confirm this result.

  18. Extension of relational event algebra to a general decision making setting

    Energy Technology Data Exchange (ETDEWEB)

    Goodman, I.R.; Kramer, G.F.

    1996-12-31

    Relational Event Algebra (REA) is a new mathematical tool which provides an explicit algebraic reconstruction of events (appropriately designated as relational events) when initially only the formal probability values of such events are given as functions of known contributing event probabilities. In turn, once such relational events are obtained, one can then determine the probability of any finite logical combination, and in particular, various probabilistic distance measures among the events. A basic application of REA is to test hypotheses for the similarity of distinct models attempting to describe the same events such as in data fusion and combination of evidence. This paper considers new motivation for the use of REA, as well as a more general decision-making framework where system performance and redundancy / consistency tradeoffs are considered.

  19. RDD Databases

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This database was established to oversee documents issued in support of fishery research activities including experimental fishing permits (EFP), letters of...

  20. Snowstorm Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Snowstorm Database is a collection of over 500 snowstorms dating back to 1900 and updated operationally. Only storms having large areas of heavy snowfall (10-20...