WorldWideScience

Sample records for tool elist database

  1. User's manual (UM) for the enhanced logistics intratheater support tool (ELIST) database utility segment version 8.1.0.0 for solaris 7.; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.

    2002-01-01

    This document is the User's Manual (UM) for the Enhanced Logistics Intratheater Support Tool (ELIST) Database Utility Segment. It tells how to use its features to administer ELIST database user accounts

  2. System administrator's manual (SAM) for the enhanced logistics intratheater support tool (ELIST) database instance segment version 8.1.0.0 for solaris 7.; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.

    2002-01-01

    This document is the System Administrator's Manual (SAM) for the Enhanced Logistics Intratheater Support Tool (ELIST) Database Instance Segment. It covers errors that can arise during the segment's installation and deinstallation, and it outlines appropriate recovery actions. It also tells how to change the password for the SYSTEM account of the database instance after the instance is created, and it discusses the creation of a suitable database instance for ELIST by means other than the installation of the segment. The latter subject is covered in more depth than its introductory discussion in the Installation Procedures (IP) for the Enhanced Logistics Intratheater Support Tool (ELIST) Global Data Segment, Database Instance Segment, Database Fill Segment, Database Segment, Database Utility Segment, Software Segment, and Reference Data Segment (referred to in portions of this document as the ELIST IP). The information in this document is expected to be of use only rarely. Other than errors arising from the failure to follow instructions, difficulties are not expected to be encountered during the installation or deinstallation of the segment. By the same token, the need to create a database instance for ELIST by means other than the installation of the segment is expected to be the exception, rather than the rule. Most administrators will only need to be aware of the help that is provided in this document and will probably not actually need to read and make use of it

  3. System administrator's manual (SAM) for the enhanced logistics intratheater support tool (ELIST) database segment version 8.1.0.0 for solaris 7.; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.

    2002-01-01

    This document is the System Administrator's Manual (SAM) for the Enhanced Logistics Intratheater Support Tool (ELIST) Database Segment. It covers errors that can arise during the segment's installation and deinstallation, and it outlines appropriate recovery actions. It also tells how to extend the database storage available to Oracle if a datastore becomes filled during the use of ELIST. The latter subject builds on some of the actions that must be performed when installing this segment, as documented in the Installation Procedures (IP) for the Enhanced Logistics Intratheater Support Tool (ELIST) Global Data Segment, Database Instance Segment, Database Fill Segment, Database Segment, Database Utility Segment, Software Segment, and Reference Data Segment (referred to in portions of this document as the ELIST IP). The information in this document is expected to be of use only rarely. Other than errors arising from the failure to follow instructions, difficulties are not expected to be encountered during the installation or deinstallation of the segment. The need to extend database storage likewise typically arises infrequently. Most administrators will only need to be aware of the help that is provided in this document and will probably not actually need to read and make use of it

  4. Software test plan/description/report (STP/STD/STR) for the enhanced logistics intratheater support tool (ELIST) global data segment. Version 8.1.0.0, Database Instance Segment Version 8.1.0.0, ...[elided] and Reference Data Segment Version 8.1.0.0 for Solaris 7; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.; Absil-Mills, M.; Jacobs, K.

    2002-01-01

    This document is the Software Test Plan/Description/Report (STP/STD/STR) for the DII COE Enhanced Logistics Intratheater Support Tool (ELIST) mission application. It combines in one document the information normally presented separately in a Software Test Plan, a Software Test Description, and a Software Test Report; it also presents this information in one place for all the segments of the ELIST mission application. The primary purpose of this document is to show that ELIST has been tested by the developer and found, by that testing, to install, deinstall, and work properly. The information presented here is detailed enough to allow the reader to repeat the testing independently. The remainder of this document is organized as follows. Section 1.1 identifies the ELIST mission application. Section 2 is the list of all documents referenced in this document. Section 3, the Software Test Plan, outlines the testing methodology and scope-the latter by way of a concise summary of the tests performed. Section 4 presents detailed descriptions of the tests, along with the expected and observed results; that section therefore combines the information normally found in a Software Test Description and a Software Test Report. The remaining small sections present supplementary information. Throughout this document, the phrase ELIST IP refers to the Installation Procedures (IP) for the Enhanced Logistics Intratheater Support Tool (ELIST) Global Data Segment, Database Instance Segment, Database Fill Segment, Database Segment, Database Utility Segment, Software Segment, and Reference Data Segment

  5. Installation procedures (IP) for the enhanced logistics intratheater support tool (ELIST) global data segment version 8.1.0.0, database instance segment version 8.1.0.0, ...[elided] and reference data segment version 8.1.0.0 for solaris 7.; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.

    2002-01-01

    This document is the Installation Procedures (IP) for the DII COE Enhanced Logistics Intraheater Support Tool (ELIST) mission application. It tells how to install and deinstall the seven segments of the mission application

  6. User's manual (UM) for the enhanced logistics intratheater support tool (ELIST) software segment version 8.1.0.0 for solaris 7.; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.

    2002-01-01

    This document is the User's Manual (UM) for the Enhanced Logistics Intratheater Support Tool (ELIST) Software Segment. It tells how to use the end-user and administrative features of the segment. The instructions in Sections 4.2.1, 5.3.1, and 5.3.2 for the end-user features (Run ELIST and Run ETEdit) only cover the launching of those features in the DII COE environment; full details on the operation of ELIST and ETEdit in any environment can be found in the documents listed in Section 2.1.3 and referenced elsewhere in this document. On the other hand, complete instructions for the administrative features (Add Map Data and Delete Map Data) are presented in Sections 4.2.2, 5.3.3, and 5.3.4 of this document

  7. Introduction to the enhanced logistics intratheater support tool (ELIST) mission application and its segments : global data segment version 8.1.0.0, database instance segment version 8.1.0.0, ...[elided] and reference data segment version 8.1.0.0 for solaris 7.; TOPICAL

    International Nuclear Information System (INIS)

    Dritz, K.

    2002-01-01

    The ELIST mission application simulates and evaluates the feasibility of intratheater transportation logistics primarily for the theater portion of a course of action. It performs a discrete event simulation of a series of movement requirements over a constrained infrastructure network using specified transportation assets. ELIST addresses the question of whether transportation infrastructures and lift allocations are adequate to support the movements of specific force structures and supplies to their destinations on time

  8. ELIST v.8.1 : User's Manual.; TOPICAL

    International Nuclear Information System (INIS)

    Van Groningen, Blachowicz D.; Duffy Braun, M.; Clemmons, M. A.; Simunich, K. L.; Timmerman, D.; VanderZee, H.; Widing, M. A.

    2002-01-01

    This user's manual documents the capabilities and functions of the Enhanced Logistics Intratheater Support Tool (ELIST) software application. Steps for using the Expanded Time Phase Force Deployment Data (ETPFDD) Editor (ETEdit), which is included in ELIST but is also a stand-alone software application, are contained in a separate document. ELIST is a discrete event simulation tool developed for use by military planners in both the continental United States (CONUS) and outside the continental United States (OCONUS). It simulates the reception, staging, onward movement, and integration (RSOI) of military personnel and equipment from all services within, between, or among countries. ELIST not only runs a simulation, but it also provides the capability to edit asset sets, networks, and scenarios. These capabilities show how various changes can affect the outcome of a simulation. Further, ELIST incorporates topographic maps on which the network is displayed. The system also allows planners to simulate scenarios at the vehicle level. Prior to the implementation of ELIST, planners were able to simulate military deployment from the point of departure (origin) to the point of arrival in the theater (the port of debarkation). Since the development and implementation of ELIST, however, planners can simulate military deployment from the point of departure (airport or seaport), through the staging area, through the theater-staging base, to the final destination. A typical scenario might be set up to transport personnel and cargo to a location by aircraft or ship. Upon arrival at the airport or seaport, the cargo would be sent to a staging area where it would be set up and transferred to a vehicle, or in the case of petroleum, oil, and lubricants (POL), a pipeline. The vehicle then would transport the cargo to the theater-staging base where it would ''marry up'' with the main body of personnel. From this point, the cargo and the main body would be transported to the final

  9. ELIST8: simulating military deployments in Java

    International Nuclear Information System (INIS)

    Van Groningen, C. N.; Blachowicz, D.; Braun, M. D.; Simunich, K. L.; Widing, M. A.

    2002-01-01

    Planning for the transportation of large amounts of equipment, troops, and supplies presents a complex problem. Many options, including modes of transportation, vehicles, facilities, routes, and timing, must be considered. The amount of data involved in generating and analyzing a course of action (e.g., detailed information about military units, logistical infrastructures, and vehicles) is enormous. Software tools are critical in defining and analyzing these plans. Argonne National Laboratory has developed ELIST (Enhanced Logistics Intra-theater Support Tool), a simulation-based decision support system, to assist military planners in determining the logistical feasibility of an intra-theater course of action. The current version of ELIST (v.8) contains a discrete event simulation developed using the Java programming language. Argonne selected Java because of its object-oriented framework, which has greatly facilitated entity and process development within the simulation, and because it fulfills a primary requirement for multi-platform execution. This paper describes the model, including setup and analysis, a high-level architectural design, and an evaluation of Java

  10. Brede Tools and Federating Online Neuroinformatics Databases

    DEFF Research Database (Denmark)

    Nielsen, Finn Årup

    2014-01-01

    As open science neuroinformatics databases the Brede Database and Brede Wiki seek to make distribution and federation of their content as easy and transparent as possible. The databases rely on simple formats and allow other online tools to reuse their content. This paper describes the possible i...

  11. Programming database tools for the casual user

    International Nuclear Information System (INIS)

    Katz, R.A; Griffiths, C.

    1990-01-01

    The AGS Distributed Control System (AGSDCS) uses a relational database management system (INTERBASE) for the storage of all data associated with the control of the particle accelerator complex. This includes the static data which describes the component devices of the complex, as well as data for application program startup and data records that are used in analysis. Due to licensing restraints, it was necessary to develop tools to allow programs requiring access to a database to be unconcerned whether or not they were running on a licensed node. An in-house database server program was written, using Apollo mailbox communication protocols, allowing application programs via calls to this server to access the interbase database. Initially, the tools used by the server to actually access the database were written using the GDML C host language interface. Through the evolutionary learning process these tools have been converted to Dynamic SQL. Additionally, these tools have been extracted from the exclusive province of the database server and placed in their own library. This enables application programs to use these same tools on a licensed node without using the database server and without having to modify the application code. The syntax of the C calls remain the same

  12. Spectroscopic databases - A tool for structure elucidation

    Energy Technology Data Exchange (ETDEWEB)

    Luksch, P [Fachinformationszentrum Karlsruhe, Gesellschaft fuer Wissenschaftlich-Technische Information mbH, Eggenstein-Leopoldshafen (Germany)

    1990-05-01

    Spectroscopic databases have developed to useful tools in the process of structure elucidation. Besides the conventional library searches, new intelligent programs have been added, that are able to predict structural features from measured spectra or to simulate for a given structure. The example of the C13NMR/IR database developed at BASF and available on STN is used to illustrate the present capabilities of online database. New developments in the field of spectrum simulation and methods for the prediction of complete structures from spectroscopic information are reviewed. (author). 10 refs, 5 figs.

  13. SIRSALE: integrated video database management tools

    Science.gov (United States)

    Brunie, Lionel; Favory, Loic; Gelas, J. P.; Lefevre, Laurent; Mostefaoui, Ahmed; Nait-Abdesselam, F.

    2002-07-01

    Video databases became an active field of research during the last decade. The main objective in such systems is to provide users with capabilities to friendly search, access and playback distributed stored video data in the same way as they do for traditional distributed databases. Hence, such systems need to deal with hard issues : (a) video documents generate huge volumes of data and are time sensitive (streams must be delivered at a specific bitrate), (b) contents of video data are very hard to be automatically extracted and need to be humanly annotated. To cope with these issues, many approaches have been proposed in the literature including data models, query languages, video indexing etc. In this paper, we present SIRSALE : a set of video databases management tools that allow users to manipulate video documents and streams stored in large distributed repositories. All the proposed tools are based on generic models that can be customized for specific applications using ad-hoc adaptation modules. More precisely, SIRSALE allows users to : (a) browse video documents by structures (sequences, scenes, shots) and (b) query the video database content by using a graphical tool, adapted to the nature of the target video documents. This paper also presents an annotating interface which allows archivists to describe the content of video documents. All these tools are coupled to a video player integrating remote VCR functionalities and are based on active network technology. So, we present how dedicated active services allow an optimized video transport for video streams (with Tamanoir active nodes). We then describe experiments of using SIRSALE on an archive of news video and soccer matches. The system has been demonstrated to professionals with a positive feedback. Finally, we discuss open issues and present some perspectives.

  14. Chemical databases evaluated by order theoretical tools.

    Science.gov (United States)

    Voigt, Kristina; Brüggemann, Rainer; Pudenz, Stefan

    2004-10-01

    Data on environmental chemicals are urgently needed to comply with the future chemicals policy in the European Union. The availability of data on parameters and chemicals can be evaluated by chemometrical and environmetrical methods. Different mathematical and statistical methods are taken into account in this paper. The emphasis is set on a new, discrete mathematical method called METEOR (method of evaluation by order theory). Application of the Hasse diagram technique (HDT) of the complete data-matrix comprising 12 objects (databases) x 27 attributes (parameters + chemicals) reveals that ECOTOX (ECO), environmental fate database (EFD) and extoxnet (EXT)--also called multi-database databases--are best. Most single databases which are specialised are found in a minimal position in the Hasse diagram; these are biocatalysis/biodegradation database (BID), pesticide database (PES) and UmweltInfo (UMW). The aggregation of environmental parameters and chemicals (equal weight) leads to a slimmer data-matrix on the attribute side. However, no significant differences are found in the "best" and "worst" objects. The whole approach indicates a rather bad situation in terms of the availability of data on existing chemicals and hence an alarming signal concerning the new and existing chemicals policies of the EEC.

  15. Documentation of databases in the Wilmar Planning tool

    International Nuclear Information System (INIS)

    Kiviluioma, J.; Meimbom, P.

    2006-01-01

    The Wilmar Planning tool consists of a number of databases and models as shown in Figure 1. This report documents the design of the following subparts of the Wilmar Planning tool: 1. The Scenario database holding the scenario trees generated from the Scenario Tree Creation model. 2. The Input database holding input data to the Joint Market model and the Long-term model apart from the scenario trees. 3. The output database containing the results of a Joint Market model run. The Wilmar Planning Tool is developed in the project Wind Power Integration in Liberalised Electricity Markets (WILMAR) supported by EU (contract ENK5-CT-2002-00663). (LN)

  16. Database Administration: Concepts, Tools, Experiences, and Problems.

    Science.gov (United States)

    Leong-Hong, Belkis; Marron, Beatrice

    The concepts of data base administration, the role of the data base administrator (DBA), and computer software tools useful in data base administration are described in order to assist data base technologists and managers. A study of DBA's in the Federal Government is detailed in terms of the functions they perform, the software tools they use,…

  17. Plant databases and data analysis tools

    Science.gov (United States)

    It is anticipated that the coming years will see the generation of large datasets including diagnostic markers in several plant species with emphasis on crop plants. To use these datasets effectively in any plant breeding program, it is essential to have the information available via public database...

  18. Reldata - a tool for reliability database management

    International Nuclear Information System (INIS)

    Vinod, Gopika; Saraf, R.K.; Babar, A.K.; Sanyasi Rao, V.V.S.; Tharani, Rajiv

    2000-01-01

    Component failure, repair and maintenance data is a very important element of any Probabilistic Safety Assessment study. The credibility of the results of such study is enhanced if the data used is generated from operating experience of similar power plants. Towards this objective, a computerised database is designed, with fields such as, date and time of failure, component name, failure mode, failure cause, ways of failure detection, reactor operating power status, repair times, down time, etc. This leads to evaluation of plant specific failure rate, and on demand failure probability/unavailability for all components. Systematic data updation can provide a real time component reliability parameter statistics and trend analysis and this helps in planning maintenance strategies. A software package has been developed RELDATA, which incorporates the database management and data analysis methods. This report describes the software features and underlying methodology in detail. (author)

  19. Database development tool DELPHI and its application

    International Nuclear Information System (INIS)

    Ma Mei

    2000-01-01

    The authors described the progress of the software development technologies and tools, the features and performances of Borland Delphi and a software development instance which is the Management Information System of Tank region storage and transportation control center for Zhenhai Refining and Chemical CO., Ltd. in the Zhejiang province

  20. Tools for quality control of fingerprint databases

    Science.gov (United States)

    Swann, B. Scott; Libert, John M.; Lepley, Margaret A.

    2010-04-01

    Integrity of fingerprint data is essential to biometric and forensic applications. Accordingly, the FBI's Criminal Justice Information Services (CJIS) Division has sponsored development of software tools to facilitate quality control functions relative to maintaining its fingerprint data assets inherent to the Integrated Automated Fingerprint Identification System (IAFIS) and Next Generation Identification (NGI). This paper provides an introduction of two such tools. The first FBI-sponsored tool was developed by the National Institute of Standards and Technology (NIST) and examines and detects the spectral signature of the ridge-flow structure characteristic of friction ridge skin. The Spectral Image Validation/Verification (SIVV) utility differentiates fingerprints from non-fingerprints, including blank frames or segmentation failures erroneously included in data; provides a "first look" at image quality; and can identify anomalies in sample rates of scanned images. The SIVV utility might detect errors in individual 10-print fingerprints inaccurately segmented from the flat, multi-finger image acquired by one of the automated collection systems increasing in availability and usage. In such cases, the lost fingerprint can be recovered by re-segmentation from the now compressed multi-finger image record. The second FBI-sponsored tool, CropCoeff was developed by MITRE and thoroughly tested via NIST. CropCoeff enables cropping of the replacement single print directly from the compressed data file, thus avoiding decompression and recompression of images that might degrade fingerprint features necessary for matching.

  1. Analysis of functionality free CASE-tools databases design

    Directory of Open Access Journals (Sweden)

    A. V. Gavrilov

    2016-01-01

    Full Text Available The introduction in the educational process of database design CASEtechnologies requires the institution of significant costs for the purchase of software. A possible solution could be the use of free software peers. At the same time this kind of substitution should be based on even-com representation of the functional characteristics and features of operation of these programs. The purpose of the article – a review of the free and non-profi t CASE-tools database design, as well as their classifi cation on the basis of the analysis functionality. When writing this article were used materials from the offi cial websites of the tool developers. Evaluation of the functional characteristics of CASEtools for database design made exclusively empirically with the direct work with software products. Analysis functionality of tools allow you to distinguish the two categories CASE-tools database design. The first category includes systems with a basic set of features and tools. The most important basic functions of these systems are: management connections to database servers, visual tools to create and modify database objects (tables, views, triggers, procedures, the ability to enter and edit data in table mode, user and privilege management tools, editor SQL-code, means export/import data. CASE-system related to the first category can be used to design and develop simple databases, data management, as well as a means of administration server database. A distinctive feature of the second category of CASE-tools for database design (full-featured systems is the presence of visual designer, allowing to carry out the construction of the database model and automatic creation of the database on the server based on this model. CASE-system related to this categories can be used for the design and development of databases of any structural complexity, as well as a database server administration tool. The article concluded that the

  2. Using XFRACAS as a PVROM database tool.

    Energy Technology Data Exchange (ETDEWEB)

    Hamman, Colin Joseph [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

    2014-04-01

    ReliaSofts XFRACAS is a tool chosen by Sandia National Laboratories (SNL) for the purpose of collecting and organizing photovoltaic (PV) system field data that is to be used in assessing PV system reliability. It is a Web-based, closed-loop, incident (failure) reporting, analysis, and corrective action system software package designed for the acquisition, management and analysis of quality and reliability data from multiple sources. The ability to export PV system times-to-failure and times-to-suspension for ready analysis by ReliaSofts Weibull++ and RGA was a primary consideration in choosing XFRACAS as a reliability data collection tool.

  3. Database Tool for Master Console Operators

    Science.gov (United States)

    Ferrell, Sean

    2018-01-01

    The Spaceport Command and Control System (SCCS) is the National Aeronautics and Space Administration's (NASA) launch control system for the Orion capsule and Space Launch System, the next generation manned rocket currently in development. This large system requires highly trained and knowledgeable personnel. Master Console Operators (MCO) are currently working on familiarizing themselves with any possible scenario that they may encounter. An intern was recruited to help assist them with creating a tool to use for the process.

  4. 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.

  5. Concepts and tools for the design of semantical databases

    CERN Document Server

    Meersman, Robert A

    1991-01-01

    The design and implementation of modern more "semantical" databases involves the use of high-level conceptual abstraction mechanisms and methodologies. An illustration of this process is given using the NIAM method and notation (lecture 1), its transformation into relational database with triggers (e.g. using SYBASE0 (lecture 2) and a study of the requirements for suitable tools (RIDL*) and their extension and applicability for e.g. object-oriented databases. A case study defined by a complex database for document handling will be used as example (lecture 3).

  6. Database tools for enhanced analysis of TMX-U data

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    A commercial database software package has been used to create several databases and tools that assist and enhance the ability of experimental physicists to analyze data from the Tandem Mirror Experiment-Upgrade (TMX-U) experiment. This software runs on a DEC-20 computer in M-Divisions's User Service Center at Lawrence Livermore National Laboratory (LLNL), where data can be analyzed off line from the main TMX-U acquisition computers. When combined with interactive data analysis programs, these tools provide the capability to do batch-style processing or interactive data analysis on the computers in the USC or the supercomputers of the National Magnetic Fusion Energy Computer Center (NMFECC) in addition to the normal processing done by the TMX-U acquisition system. One database tool provides highly reduced data for searching and correlation analysis of several diagnostic signals within a single shot or over many shots. A second database tool provides retrieval and storage of unreduced data for use in detailed analysis of one or more diagnostic signals. We will show how these database tools form the core of an evolving off-line data analysis environment on the USC computers

  7. Database tools for enhanced analysis of TMX-U data

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    A commercial database software package has been used to create several databases and tools that assist and enhance the ability of experimental physicists to analyze data from the Tandem Mirror Experiment-Upgrade (TMX-U) experiment. This software runs on a DEC-20 computer in M-Division's User Service Center at Lawrence Livermore National Laboratory (LLNL), where data can be analyzed offline from the main TMX-U acquisition computers. When combined with interactive data analysis programs, these tools provide the capability to do batch-style processing or interactive data analysis on the computers in the USC or the supercomputers of the National Magnetic Fusion Energy Computer Center (NMFECC) in addition to the normal processing done by the TMX-U acquisition system. One database tool provides highly reduced data for searching and correlation analysis of several diagnostic signals within a single shot or over many shots. A second database tool provides retrieval and storage of unreduced data for use in detailed analysis of one or more diagnostic signals. We will show how these database tools form the core of an evolving offline data analysis environment on the USC computers

  8. 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)

  9. A database of immunoglobulins with integrated tools: DIGIT.

    KAUST Repository

    Chailyan, Anna; Tramontano, Anna; Marcatili, Paolo

    2011-01-01

    The DIGIT (Database of ImmunoGlobulins with Integrated Tools) database (http://biocomputing.it/digit) is an integrated resource storing sequences of annotated immunoglobulin variable domains and enriched with tools for searching and analyzing them. The annotations in the database include information on the type of antigen, the respective germline sequences and on pairing information between light and heavy chains. Other annotations, such as the identification of the complementarity determining regions, assignment of their structural class and identification of mutations with respect to the germline, are computed on the fly and can also be obtained for user-submitted sequences. The system allows customized BLAST searches and automatic building of 3D models of the domains to be performed.

  10. A database of immunoglobulins with integrated tools: DIGIT.

    KAUST Repository

    Chailyan, Anna

    2011-11-10

    The DIGIT (Database of ImmunoGlobulins with Integrated Tools) database (http://biocomputing.it/digit) is an integrated resource storing sequences of annotated immunoglobulin variable domains and enriched with tools for searching and analyzing them. The annotations in the database include information on the type of antigen, the respective germline sequences and on pairing information between light and heavy chains. Other annotations, such as the identification of the complementarity determining regions, assignment of their structural class and identification of mutations with respect to the germline, are computed on the fly and can also be obtained for user-submitted sequences. The system allows customized BLAST searches and automatic building of 3D models of the domains to be performed.

  11. Database of Legal Terms for Communicative and Knowledge Information Tools

    DEFF Research Database (Denmark)

    Nielsen, Sandro

    2014-01-01

    foundations of online dictionaries in light of the technical options available for online information tools combined with modern lexicographic principles. The above discussion indicates that the legal database is a repository of structured data serving online dictionaries that search for data in databases......, retrieve the relevant data, and present them to users in predetermined ways. Lawyers, students and translators can thus access the data through targeted searches relating directly to the problems they need to solve, because search engines are designed according to dictionary functions, i.e. the type...

  12. SINEBase: a database and tool for SINE analysis.

    Science.gov (United States)

    Vassetzky, Nikita S; Kramerov, Dmitri A

    2013-01-01

    SINEBase (http://sines.eimb.ru) integrates the revisited body of knowledge about short interspersed elements (SINEs). A set of formal definitions concerning SINEs was introduced. All available sequence data were screened through these definitions and the genetic elements misidentified as SINEs were discarded. As a result, 175 SINE families have been recognized in animals, flowering plants and green algae. These families were classified by the modular structure of their nucleotide sequences and the frequencies of different patterns were evaluated. These data formed the basis for the database of SINEs. The SINEBase website can be used in two ways: first, to explore the database of SINE families, and second, to analyse candidate SINE sequences using specifically developed tools. This article presents an overview of the database and the process of SINE identification and analysis.

  13. Web Exploration Tools for a Fast Federated Optical Survey Database

    Science.gov (United States)

    Humphreys, Roberta M.

    2000-01-01

    We implemented several new web-based tools to improve the efficiency and versatility of access to the APS Catalog of the POSS I (Palomar Observatory-National Geographic Sky Survey) and its associated image database. The most important addition was a federated database system to link the APS Catalog and image database into one Internet-accessible database. With the FDBS, the queries and transactions on the integrated database are performed as if it were a single database. We installed Myriad the FDBS developed by Professor Jaideep Srivastava and members of his group in the University of Minnesota Computer Science Department. It is the first system to provide schema integration, query processing and optimization, and transaction management capabilities in a single framework. The attached figure illustrates the Myriad architecture. The FDBS permits horizontal access to the data, not just vertical. For example, for the APS, queries can be made not only by sky position, but also by any parameter present in either of the databases. APS users will be able to produce an image of all the blue galaxies and stellar sources for comparison with x-ray source error ellipses from AXAF (X Ray Astrophysics Facility) (Chandra) for example. The FDBS is now available as a beta release with the appropriate query forms at our web site. While much of our time was occupied with adapting Myriad to the APS environment, we also made major changes in Star Base, our DBMS for the Catalog, at the web interface to improve its efficiency for issuing and processing queries. Star Base is now three times faster for large queries. Improvements were also made at the web end of the image database for faster access; although work still needs to be done to the image database itself for more efficient return with the FDBS. During the past few years, we made several improvements to the database pipeline that creates the individual plate databases queries by StarBase. The changes include improved positions

  14. New tools and improvements in the Exoplanet Transit Database

    Directory of Open Access Journals (Sweden)

    Pejcha O.

    2011-02-01

    Full Text Available Comprehensive collection of the available light curves, prediction possibilities and the online model fitting procedure, that are available via Exoplanet Transit Database became very popular in the community. In this paper we summarized the changes, that we made in the ETD during last year (including the Kepler candidates into the prediction section, modeling of an unknown planet in the model-fit section and some other small improvements. All this new tools cannot be found in the main ETD paper.

  15. Comparison of Diarization Tools for Building Speaker Database

    Directory of Open Access Journals (Sweden)

    Eva Kiktova

    2015-01-01

    Full Text Available This paper compares open source diarization toolkits (LIUM, DiarTK, ALIZE-Lia_Ral, which were designed for extraction of speaker identity from audio records without any prior information about the analysed data. The comparative study of used diarization tools was performed for three different types of analysed data (broadcast news - BN and TV shows. Corresponding values of achieved DER measure are presented here. The automatic speaker diarization system developed by LIUM was able to identified speech segments belonging to speakers at very good level. Its segmentation outputs can be used to build a speaker database.

  16. Compression-Based Tools for Navigation with an Image Database

    Directory of Open Access Journals (Sweden)

    Giovanni Motta

    2012-01-01

    Full Text Available We present tools that can be used within a larger system referred to as a passive assistant. The system receives information from a mobile device, as well as information from an image database such as Google Street View, and employs image processing to provide useful information about a local urban environment to a user who is visually impaired. The first stage acquires and computes accurate location information, the second stage performs texture and color analysis of a scene, and the third stage provides specific object recognition and navigation information. These second and third stages rely on compression-based tools (dimensionality reduction, vector quantization, and coding that are enhanced by knowledge of (approximate location of objects.

  17. KAIKObase: An integrated silkworm genome database and data mining tool

    Directory of Open Access Journals (Sweden)

    Nagaraju Javaregowda

    2009-10-01

    Full Text Available Abstract Background The silkworm, Bombyx mori, is one of the most economically important insects in many developing countries owing to its large-scale cultivation for silk production. With the development of genomic and biotechnological tools, B. mori has also become an important bioreactor for production of various recombinant proteins of biomedical interest. In 2004, two genome sequencing projects for B. mori were reported independently by Chinese and Japanese teams; however, the datasets were insufficient for building long genomic scaffolds which are essential for unambiguous annotation of the genome. Now, both the datasets have been merged and assembled through a joint collaboration between the two groups. Description Integration of the two data sets of silkworm whole-genome-shotgun sequencing by the Japanese and Chinese groups together with newly obtained fosmid- and BAC-end sequences produced the best continuity (~3.7 Mb in N50 scaffold size among the sequenced insect genomes and provided a high degree of nucleotide coverage (88% of all 28 chromosomes. In addition, a physical map of BAC contigs constructed by fingerprinting BAC clones and a SNP linkage map constructed using BAC-end sequences were available. In parallel, proteomic data from two-dimensional polyacrylamide gel electrophoresis in various tissues and developmental stages were compiled into a silkworm proteome database. Finally, a Bombyx trap database was constructed for documenting insertion positions and expression data of transposon insertion lines. Conclusion For efficient usage of genome information for functional studies, genomic sequences, physical and genetic map information and EST data were compiled into KAIKObase, an integrated silkworm genome database which consists of 4 map viewers, a gene viewer, and sequence, keyword and position search systems to display results and data at the level of nucleotide sequence, gene, scaffold and chromosome. Integration of the

  18. Bioinformatics Database Tools in Analysis of Genetics of Neurodevelopmental Disorders

    Directory of Open Access Journals (Sweden)

    Dibyashree Mallik

    2017-10-01

    Full Text Available Bioinformatics tools are recently used in various sectors of biology. Many questions regarding Neurodevelopmental disorder which arises as a major health issue recently can be solved by using various bioinformatics databases. Schizophrenia is such a mental disorder which is now arises as a major threat in young age people because it is mostly seen in case of people during their late adolescence or early adulthood period. Databases like DISGENET, GWAS, PHARMGKB, and DRUGBANK have huge repository of genes associated with schizophrenia. We found a lot of genes are being associated with schizophrenia, but approximately 200 genes are found to be present in any of these databases. After further screening out process 20 genes are found to be highly associated with each other and are also a common genes in many other diseases also. It is also found that they all are serves as a common targeting gene in many antipsychotic drugs. After analysis of various biological properties, molecular function it is found that these 20 genes are mostly involved in biological regulation process and are having receptor activity. They are belonging mainly to receptor protein class. Among these 20 genes CYP2C9, CYP3A4, DRD2, HTR1A, HTR2A are shown to be a main targeting genes of most of the antipsychotic drugs and are associated with  more than 40% diseases. The basic findings of the present study enumerated that a suitable combined drug can be design by targeting these genes which can be used for the better treatment of schizophrenia.

  19. Automated tools for cross-referencing large databases. Final report

    Energy Technology Data Exchange (ETDEWEB)

    Clapp, N E; Green, P L; Bell, D [and others

    1997-05-01

    A Cooperative Research and Development Agreement (CRADA) was funded with TRESP Associates, Inc., to develop a limited prototype software package operating on one platform (e.g., a personal computer, small workstation, or other selected device) to demonstrate the concepts of using an automated database application to improve the process of detecting fraud and abuse of the welfare system. An analysis was performed on Tennessee`s welfare administration system. This analysis was undertaken to determine if the incidence of welfare waste, fraud, and abuse could be reduced and if the administrative process could be improved to reduce benefits overpayment errors. The analysis revealed a general inability to obtain timely data to support the verification of a welfare recipient`s economic status and eligibility for benefits. It has been concluded that the provision of more modern computer-based tools and the establishment of electronic links to other state and federal data sources could increase staff efficiency, reduce the incidence of out-of-date information provided to welfare assistance staff, and make much of the new data required available in real time. Electronic data links have been proposed to allow near-real-time access to data residing in databases located in other states and at federal agency data repositories. The ability to provide these improvements to the local office staff would require the provision of additional computers, software, and electronic data links within each of the offices and the establishment of approved methods of accessing remote databases and transferring potentially sensitive data. In addition, investigations will be required to ascertain if existing laws would allow such data transfers, and if not, what changed or new laws would be required. The benefits, in both cost and efficiency, to the state of Tennessee of having electronically-enhanced welfare system administration and control are expected to result in a rapid return of investment.

  20. A data-based conservation planning tool for Florida panthers

    Science.gov (United States)

    Murrow, Jennifer L.; Thatcher, Cindy A.; Van Manen, Frank T.; Clark, Joseph D.

    2013-01-01

    Habitat loss and fragmentation are the greatest threats to the endangered Florida panther (Puma concolor coryi). We developed a data-based habitat model and user-friendly interface so that land managers can objectively evaluate Florida panther habitat. We used a geographic information system (GIS) and the Mahalanobis distance statistic (D2) to develop a model based on broad-scale landscape characteristics associated with panther home ranges. Variables in our model were Euclidean distance to natural land cover, road density, distance to major roads, human density, amount of natural land cover, amount of semi-natural land cover, amount of permanent or semi-permanent flooded area–open water, and a cost–distance variable. We then developed a Florida Panther Habitat Estimator tool, which automates and replicates the GIS processes used to apply the statistical habitat model. The estimator can be used by persons with moderate GIS skills to quantify effects of land-use changes on panther habitat at local and landscape scales. Example applications of the tool are presented.

  1. Global Tsunami Database: Adding Geologic Deposits, Proxies, and Tools

    Science.gov (United States)

    Brocko, V. R.; Varner, J.

    2007-12-01

    A result of collaboration between NOAA's National Geophysical Data Center (NGDC) and the Cooperative Institute for Research in the Environmental Sciences (CIRES), the Global Tsunami Database includes instrumental records, human observations, and now, information inferred from the geologic record. Deep Ocean Assessment and Reporting of Tsunamis (DART) data, historical reports, and information gleaned from published tsunami deposit research build a multi-faceted view of tsunami hazards and their history around the world. Tsunami history provides clues to what might happen in the future, including frequency of occurrence and maximum wave heights. However, instrumental and written records commonly span too little time to reveal the full range of a region's tsunami hazard. The sedimentary deposits of tsunamis, identified with the aid of modern analogs, increasingly complement instrumental and human observations. By adding the component of tsunamis inferred from the geologic record, the Global Tsunami Database extends the record of tsunamis backward in time. Deposit locations, their estimated age and descriptions of the deposits themselves fill in the tsunami record. Tsunamis inferred from proxies, such as evidence for coseismic subsidence, are included to estimate recurrence intervals, but are flagged to highlight the absence of a physical deposit. Authors may submit their own descriptions and upload digital versions of publications. Users may sort by any populated field, including event, location, region, age of deposit, author, publication type (extract information from peer reviewed publications only, if you wish), grain size, composition, presence/absence of plant material. Users may find tsunami deposit references for a given location, event or author; search for particular properties of tsunami deposits; and even identify potential collaborators. Users may also download public-domain documents. Data and information may be viewed using tools designed to extract and

  2. The Web-Database Connection Tools for Sharing Information on the Campus Intranet.

    Science.gov (United States)

    Thibeault, Nancy E.

    This paper evaluates four tools for creating World Wide Web pages that interface with Microsoft Access databases: DB Gateway, Internet Database Assistant (IDBA), Microsoft Internet Database Connector (IDC), and Cold Fusion. The system requirements and features of each tool are discussed. A sample application, "The Virtual Help Desk"…

  3. Database constraints applied to metabolic pathway reconstruction tools.

    Science.gov (United States)

    Vilaplana, Jordi; Solsona, Francesc; Teixido, Ivan; Usié, Anabel; Karathia, Hiren; Alves, Rui; Mateo, Jordi

    2014-01-01

    Our group developed two biological applications, Biblio-MetReS and Homol-MetReS, accessing the same database of organisms with annotated genes. Biblio-MetReS is a data-mining application that facilitates the reconstruction of molecular networks based on automated text-mining analysis of published scientific literature. Homol-MetReS allows functional (re)annotation of proteomes, to properly identify both the individual proteins involved in the process(es) of interest and their function. It also enables the sets of proteins involved in the process(es) in different organisms to be compared directly. The efficiency of these biological applications is directly related to the design of the shared database. We classified and analyzed the different kinds of access to the database. Based on this study, we tried to adjust and tune the configurable parameters of the database server to reach the best performance of the communication data link to/from the database system. Different database technologies were analyzed. We started the study with a public relational SQL database, MySQL. Then, the same database was implemented by a MapReduce-based database named HBase. The results indicated that the standard configuration of MySQL gives an acceptable performance for low or medium size databases. Nevertheless, tuning database parameters can greatly improve the performance and lead to very competitive runtimes.

  4. Database Constraints Applied to Metabolic Pathway Reconstruction Tools

    Directory of Open Access Journals (Sweden)

    Jordi Vilaplana

    2014-01-01

    Full Text Available Our group developed two biological applications, Biblio-MetReS and Homol-MetReS, accessing the same database of organisms with annotated genes. Biblio-MetReS is a data-mining application that facilitates the reconstruction of molecular networks based on automated text-mining analysis of published scientific literature. Homol-MetReS allows functional (reannotation of proteomes, to properly identify both the individual proteins involved in the process(es of interest and their function. It also enables the sets of proteins involved in the process(es in different organisms to be compared directly. The efficiency of these biological applications is directly related to the design of the shared database. We classified and analyzed the different kinds of access to the database. Based on this study, we tried to adjust and tune the configurable parameters of the database server to reach the best performance of the communication data link to/from the database system. Different database technologies were analyzed. We started the study with a public relational SQL database, MySQL. Then, the same database was implemented by a MapReduce-based database named HBase. The results indicated that the standard configuration of MySQL gives an acceptable performance for low or medium size databases. Nevertheless, tuning database parameters can greatly improve the performance and lead to very competitive runtimes.

  5. The UKNG database: a simple audit tool for interventional neuroradiology

    International Nuclear Information System (INIS)

    Millar, J.S.; Burke, M.

    2007-01-01

    The UK Neurointerventional Group (UKNG) has developed a unified database for the purposes of recording, analysis and clinical audit of neuroangiography and neurointerventional procedures. It has been in use since January 2002. The database utilizes an Access platform (Microsoft) comprising separate but linked programs for data collection and analysis. The program that analyses aneurysm therapy has been designed to mirror the criteria used in the International Subarachnoid Aneurysm Trial (ISAT). Data entered into the main database immediately update the analysis program producing clinical outcome scores in the form of a report. Our local database (Wessex) now contains records on more than 1,750 patients including nearly 350 aneurysm coilings and a total of approximately 500 neurointerventional, vascular procedures. Every time a new piece of information is added to the main database the reporting database is automatically updated which allows 'real-time' audit and analysis of one's clinical practice. The clinical outcome scores for aneurysm treatment are presented in such a way that we can directly compare our results with the 'Clinical Standard' set by ISAT. This database provides a unique opportunity to monitor and review practice at national level. The UKNG wishes to share this database with the wider neurointerventional community and a copy of the software can be obtained free of charge from the authors. (orig.)

  6. Video Databases: An Emerging Tool in Business Education

    Science.gov (United States)

    MacKinnon, Gregory; Vibert, Conor

    2014-01-01

    A video database of business-leader interviews has been implemented in the assignment work of students in a Bachelor of Business Administration program at a primarily-undergraduate liberal arts university. This action research study was designed to determine the most suitable assignment work to associate with the database in a Business Strategy…

  7. The UKNG database: a simple audit tool for interventional neuroradiology

    Energy Technology Data Exchange (ETDEWEB)

    Millar, J.S.; Burke, M. [Southampton General Hospital, Departments of Neuroradiology and IT, Wessex Neurological Centre, Southampton (United Kingdom)

    2007-06-15

    The UK Neurointerventional Group (UKNG) has developed a unified database for the purposes of recording, analysis and clinical audit of neuroangiography and neurointerventional procedures. It has been in use since January 2002. The database utilizes an Access platform (Microsoft) comprising separate but linked programs for data collection and analysis. The program that analyses aneurysm therapy has been designed to mirror the criteria used in the International Subarachnoid Aneurysm Trial (ISAT). Data entered into the main database immediately update the analysis program producing clinical outcome scores in the form of a report. Our local database (Wessex) now contains records on more than 1,750 patients including nearly 350 aneurysm coilings and a total of approximately 500 neurointerventional, vascular procedures. Every time a new piece of information is added to the main database the reporting database is automatically updated which allows 'real-time' audit and analysis of one's clinical practice. The clinical outcome scores for aneurysm treatment are presented in such a way that we can directly compare our results with the 'Clinical Standard' set by ISAT. This database provides a unique opportunity to monitor and review practice at national level. The UKNG wishes to share this database with the wider neurointerventional community and a copy of the software can be obtained free of charge from the authors. (orig.)

  8. DEVELOPING MULTITHREADED DATABASE APPLICATION USING JAVA TOOLS AND ORACLE DATABASE MANAGEMENT SYSTEM IN INTRANET ENVIRONMENT

    OpenAIRE

    Raied Salman

    2015-01-01

    In many business organizations, database applications are designed and implemented using various DBMS and Programming Languages. These applications are used to maintain databases for the organizations. The organization departments can be located at different locations and can be connected by intranet environment. In such environment maintenance of database records become an assignment of complexity which needs to be resolved. In this paper an intranet application is designed an...

  9. Interaction between policy measures. Analysis tool in the MURE database

    Energy Technology Data Exchange (ETDEWEB)

    Boonekamp, P.G.M. [ECN Policy Studies, Petten (Netherlands); Faberi, S. [Institute of Studies for the Integration of Systems ISIS, Rome (Italy)

    2013-12-15

    The ODYSSEE database on energy efficiency indicators (www.odyssee-indicators.org) has been set up to enable the monitoring and evaluation of realised energy efficiency improvements and related energy savings. The database covers the 27 EU countries as well as Norway and Croatia and data are available from 1990 on. This report describes how sets of mutually consistent impacts for packages as well as individual policy measures can be determined in the MURE database (MURE is the French abbreviation for Mesures d'Utilisation Rationnelle de l'Energie)

  10. Using Web Database Tools To Facilitate the Construction of Knowledge in Online Courses.

    Science.gov (United States)

    McNeil, Sara G.; Robin, Bernard R.

    This paper presents an overview of database tools that dynamically generate World Wide Web materials and focuses on the use of these tools to support research activities, as well as teaching and learning. Database applications have been used in classrooms to support learning activities for over a decade, but, although business and e-commerce have…

  11. The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists.

    OpenAIRE

    Sven Heinicke; Michael S Livstone; Charles Lu; Rose Oughtred; Fan Kang; Samuel V Angiuoli; Owen White; David Botstein; Kara Dolinski

    2007-01-01

    Many biological databases that provide comparative genomics information and tools are now available on the internet. While certainly quite useful, to our knowledge none of the existing databases combine results from multiple comparative genomics methods with manually curated information from the literature. Here we describe the Princeton Protein Orthology Database (P-POD, http://ortholog.princeton.edu), a user-friendly database system that allows users to find and visualize the phylogenetic r...

  12. 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)

  13. Status of PGAA database compilation and dissemination tools

    International Nuclear Information System (INIS)

    Firestone, Richard B.

    2001-01-01

    We are continuing the development of a comprehensive PGAA database at the Lawrence Berkeley National Laboratory. Isotopic data from the Evaluated Nuclear Structure Data File (ENSDF) are being combined with elemental data measured at the Budapest Reactor to develop a comprehensive database of gamma-ray energies, cross-section yields, and k factors. The more intense Budapest gamma rays for all elements have now been assigned to their associated isotopes on the basis of comparison with ENSDF. For the elements with atomic numbers Z=1-20, the ENSDF and Budapest datasets have been combined to create adopted PGAA gamma-ray datasets. These adopted datasets are typically sufficiently complete to determine the total thermal neutron cross section from the level scheme intensity balance. Software for dissemination of the PGAA data has been developed in collaboration with visiting students from EVITech, Finland

  14. TabSQL: a MySQL tool to facilitate mapping user data to public databases.

    Science.gov (United States)

    Xia, Xiao-Qin; McClelland, Michael; Wang, Yipeng

    2010-06-23

    With advances in high-throughput genomics and proteomics, it is challenging for biologists to deal with large data files and to map their data to annotations in public databases. We developed TabSQL, a MySQL-based application tool, for viewing, filtering and querying data files with large numbers of rows. TabSQL provides functions for downloading and installing table files from public databases including the Gene Ontology database (GO), the Ensembl databases, and genome databases from the UCSC genome bioinformatics site. Any other database that provides tab-delimited flat files can also be imported. The downloaded gene annotation tables can be queried together with users' data in TabSQL using either a graphic interface or command line. TabSQL allows queries across the user's data and public databases without programming. It is a convenient tool for biologists to annotate and enrich their data.

  15. Comparing the Performance of Object Databases and ORM Tools

    CSIR Research Space (South Africa)

    Van Zyl, P

    2006-10-01

    Full Text Available to various sources of legacy data, use an ORM tool. Although helpful, these rules are often highly context-dependent and are often misapplied. Research into the nature and magnitude of ‘design forces’ in this area has resulted in a series of benchmarks...

  16. The Development of a Benchmark Tool for NoSQL Databases

    Directory of Open Access Journals (Sweden)

    Ion LUNGU

    2013-07-01

    Full Text Available The aim of this article is to describe a proposed benchmark methodology and software application targeted at measuring the performance of both SQL and NoSQL databases. These represent the results obtained during PhD research (being actually a part of a larger application intended for NoSQL database management. A reason for aiming at this particular subject is the complete lack of benchmarking tools for NoSQL databases, except for YCBS [1] and a benchmark tool made specifically to compare Redis to RavenDB. While there are several well-known benchmarking systems for classical relational databases (starting with the canon TPC-C, TPC-E and TPC-H, on the other side of databases world such tools are mostly missing and seriously needed.

  17. An online database for plant image analysis software tools

    OpenAIRE

    Lobet, Guillaume; Draye, Xavier; Périlleux, Claire

    2013-01-01

    Background: Recent years have seen an increase in methods for plant phenotyping using image analyses. These methods require new software solutions for data extraction and treatment. These solutions are instrumental in supporting various research pipelines, ranging from the localisation of cellular compounds to the quantification of tree canopies. However, due to the variety of existing tools and the lack of central repository, it is challenging for researchers to identify the software that is...

  18. Contingency Contractor Optimization Phase 3 Sustainment Database Design Document - Contingency Contractor Optimization Tool - Prototype

    Energy Technology Data Exchange (ETDEWEB)

    Frazier, Christopher Rawls; Durfee, Justin David; Bandlow, Alisa; Gearhart, Jared Lee; Jones, Katherine A

    2016-05-01

    The Contingency Contractor Optimization Tool – Prototype (CCOT-P) database is used to store input and output data for the linear program model described in [1]. The database allows queries to retrieve this data and updating and inserting new input data.

  19. Databases and web tools for cancer genomics study.

    Science.gov (United States)

    Yang, Yadong; Dong, Xunong; Xie, Bingbing; Ding, Nan; Chen, Juan; Li, Yongjun; Zhang, Qian; Qu, Hongzhu; Fang, Xiangdong

    2015-02-01

    Publicly-accessible resources have promoted the advance of scientific discovery. The era of genomics and big data has brought the need for collaboration and data sharing in order to make effective use of this new knowledge. Here, we describe the web resources for cancer genomics research and rate them on the basis of the diversity of cancer types, sample size, omics data comprehensiveness, and user experience. The resources reviewed include data repository and analysis tools; and we hope such introduction will promote the awareness and facilitate the usage of these resources in the cancer research community. Copyright © 2015 The Authors. Production and hosting by Elsevier Ltd.. All rights reserved.

  20. ASAView: Database and tool for solvent accessibility representation in proteins

    Directory of Open Access Journals (Sweden)

    Fawareh Hamed

    2004-05-01

    Full Text Available Abstract Background Accessible surface area (ASA or solvent accessibility of amino acids in a protein has important implications. Knowledge of surface residues helps in locating potential candidates of active sites. Therefore, a method to quickly see the surface residues in a two dimensional model would help to immediately understand the population of amino acid residues on the surface and in the inner core of the proteins. Results ASAView is an algorithm, an application and a database of schematic representations of solvent accessibility of amino acid residues within proteins. A characteristic two-dimensional spiral plot of solvent accessibility provides a convenient graphical view of residues in terms of their exposed surface areas. In addition, sequential plots in the form of bar charts are also provided. Online plots of the proteins included in the entire Protein Data Bank (PDB, are provided for the entire protein as well as their chains separately. Conclusions These graphical plots of solvent accessibility are likely to provide a quick view of the overall topological distribution of residues in proteins. Chain-wise computation of solvent accessibility is also provided.

  1. Databases and Associated Bioinformatic Tools in Studies of Food Allergens, Epitopes and Haptens – a Review

    Directory of Open Access Journals (Sweden)

    Bucholska Justyna

    2018-06-01

    Full Text Available Allergies and/or food intolerances are a growing problem of the modern world. Diffi culties associated with the correct diagnosis of food allergies result in the need to classify the factors causing allergies and allergens themselves. Therefore, internet databases and other bioinformatic tools play a special role in deepening knowledge of biologically-important compounds. Internet repositories, as a source of information on different chemical compounds, including those related to allergy and intolerance, are increasingly being used by scientists. Bioinformatic methods play a signifi cant role in biological and medical sciences, and their importance in food science is increasing. This study aimed at presenting selected databases and tools of bioinformatic analysis useful in research on food allergies, allergens (11 databases, epitopes (7 databases, and haptens (2 databases. It also presents examples of the application of computer methods in studies related to allergies.

  2. MetaboSearch: tool for mass-based metabolite identification using multiple databases.

    Directory of Open Access Journals (Sweden)

    Bin Zhou

    Full Text Available Searching metabolites against databases according to their masses is often the first step in metabolite identification for a mass spectrometry-based untargeted metabolomics study. Major metabolite databases include Human Metabolome DataBase (HMDB, Madison Metabolomics Consortium Database (MMCD, Metlin, and LIPID MAPS. Since each one of these databases covers only a fraction of the metabolome, integration of the search results from these databases is expected to yield a more comprehensive coverage. However, the manual combination of multiple search results is generally difficult when identification of hundreds of metabolites is desired. We have implemented a web-based software tool that enables simultaneous mass-based search against the four major databases, and the integration of the results. In addition, more complete chemical identifier information for the metabolites is retrieved by cross-referencing multiple databases. The search results are merged based on IUPAC International Chemical Identifier (InChI keys. Besides a simple list of m/z values, the software can accept the ion annotation information as input for enhanced metabolite identification. The performance of the software is demonstrated on mass spectrometry data acquired in both positive and negative ionization modes. Compared with search results from individual databases, MetaboSearch provides better coverage of the metabolome and more complete chemical identifier information.The software tool is available at http://omics.georgetown.edu/MetaboSearch.html.

  3. ODG: Omics database generator - a tool for generating, querying, and analyzing multi-omics comparative databases to facilitate biological understanding.

    Science.gov (United States)

    Guhlin, Joseph; Silverstein, Kevin A T; Zhou, Peng; Tiffin, Peter; Young, Nevin D

    2017-08-10

    Rapid generation of omics data in recent years have resulted in vast amounts of disconnected datasets without systemic integration and knowledge building, while individual groups have made customized, annotated datasets available on the web with few ways to link them to in-lab datasets. With so many research groups generating their own data, the ability to relate it to the larger genomic and comparative genomic context is becoming increasingly crucial to make full use of the data. The Omics Database Generator (ODG) allows users to create customized databases that utilize published genomics data integrated with experimental data which can be queried using a flexible graph database. When provided with omics and experimental data, ODG will create a comparative, multi-dimensional graph database. ODG can import definitions and annotations from other sources such as InterProScan, the Gene Ontology, ENZYME, UniPathway, and others. This annotation data can be especially useful for studying new or understudied species for which transcripts have only been predicted, and rapidly give additional layers of annotation to predicted genes. In better studied species, ODG can perform syntenic annotation translations or rapidly identify characteristics of a set of genes or nucleotide locations, such as hits from an association study. ODG provides a web-based user-interface for configuring the data import and for querying the database. Queries can also be run from the command-line and the database can be queried directly through programming language hooks available for most languages. ODG supports most common genomic formats as well as generic, easy to use tab-separated value format for user-provided annotations. ODG is a user-friendly database generation and query tool that adapts to the supplied data to produce a comparative genomic database or multi-layered annotation database. ODG provides rapid comparative genomic annotation and is therefore particularly useful for non-model or

  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. Data-base tools for enhanced analysis of TMX-U data

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    The authors use a commercial data-base software package to create several data-base products that enhance the ability of experimental physicists to analyze data from the TMX-U experiment. This software resides on a Dec-20 computer in M-Divisions's user service center (USC), where data can be analyzed separately from the main acquisition computers. When these data-base tools are combined with interactive data analysis programs, physicists can perform automated (batch-style) processing or interactive data analysis on the computers in the USC or on the supercomputers of the NMFECC, in addition to the normal processing done on the acquisition system. One data-base tool provides highly reduced data for searching and correlation analysis of several diagnostic signals for a single shot or many shots. A second data-base tool provides retrieval and storage of unreduced data for detailed analysis of one or more diagnostic signals. The authors report how these data-base tools form the core of an evolving off-line data-analysis environment on the USC computers

  6. jSPyDB, an open source database-independent tool for data management

    Science.gov (United States)

    Pierro, Giuseppe Antonio; Cavallari, Francesca; Di Guida, Salvatore; Innocente, Vincenzo

    2011-12-01

    Nowadays, the number of commercial tools available for accessing Databases, built on Java or .Net, is increasing. However, many of these applications have several drawbacks: usually they are not open-source, they provide interfaces only with a specific kind of database, they are platform-dependent and very CPU and memory consuming. jSPyDB is a free web-based tool written using Python and Javascript. It relies on jQuery and python libraries, and is intended to provide a simple handler to different database technologies inside a local web browser. Such a tool, exploiting fast access libraries such as SQLAlchemy, is easy to install, and to configure. The design of this tool envisages three layers. The front-end client side in the local web browser communicates with a backend server. Only the server is able to connect to the different databases for the purposes of performing data definition and manipulation. The server makes the data available to the client, so that the user can display and handle them safely. Moreover, thanks to jQuery libraries, this tool supports export of data in different formats, such as XML and JSON. Finally, by using a set of pre-defined functions, users are allowed to create their customized views for a better data visualization. In this way, we optimize the performance of database servers by avoiding short connections and concurrent sessions. In addition, security is enforced since we do not provide users the possibility to directly execute any SQL statement.

  7. jSPyDB, an open source database-independent tool for data management

    International Nuclear Information System (INIS)

    Pierro, Giuseppe Antonio; Cavallari, Francesca; Di Guida, Salvatore; Innocente, Vincenzo

    2011-01-01

    Nowadays, the number of commercial tools available for accessing Databases, built on Java or .Net, is increasing. However, many of these applications have several drawbacks: usually they are not open-source, they provide interfaces only with a specific kind of database, they are platform-dependent and very CPU and memory consuming. jSPyDB is a free web-based tool written using Python and Javascript. It relies on jQuery and python libraries, and is intended to provide a simple handler to different database technologies inside a local web browser. Such a tool, exploiting fast access libraries such as SQLAlchemy, is easy to install, and to configure. The design of this tool envisages three layers. The front-end client side in the local web browser communicates with a backend server. Only the server is able to connect to the different databases for the purposes of performing data definition and manipulation. The server makes the data available to the client, so that the user can display and handle them safely. Moreover, thanks to jQuery libraries, this tool supports export of data in different formats, such as XML and JSON. Finally, by using a set of pre-defined functions, users are allowed to create their customized views for a better data visualization. In this way, we optimize the performance of database servers by avoiding short connections and concurrent sessions. In addition, security is enforced since we do not provide users the possibility to directly execute any SQL statement.

  8. Database tools for enhanced analysis of TMX-U data. Revision 1

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    A commercial database software package has been used to create several databases and tools that assist and enhance the ability of experimental physicists to analyze data from the Tandem Mirror Experiment-Upgrade (TMX-U) experiment. This software runs on a DEC-20 computer in M-Division's User Service Center at Lawrence Livermore National Laboratory (LLNL), where data can be analyzed offline from the main TMX-U acquisition computers. When combined with interactive data analysis programs, these tools provide the capability to do batch-style processing or interactive data analysis on the computers in the USC or the supercomputers of the National Magnetic Fusion Energy Computer Center (NMFECC) in addition to the normal processing done by the TMX-U acquisition system. One database tool provides highly reduced data for searching and correlation analysis of several diagnostic signals within a single shot or over many shots. A second database tool provides retrieval and storage of unreduced data for use in detailed analysis of one or more diagnostic signals. We will show how these database tools form the core of an evolving offline data analysis environment on the USC computers

  9. 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...

  10. Tools and Databases of the KOMICS Web Portal for Preprocessing, Mining, and Dissemination of Metabolomics Data

    Directory of Open Access Journals (Sweden)

    Nozomu Sakurai

    2014-01-01

    Full Text Available A metabolome—the collection of comprehensive quantitative data on metabolites in an organism—has been increasingly utilized for applications such as data-intensive systems biology, disease diagnostics, biomarker discovery, and assessment of food quality. A considerable number of tools and databases have been developed to date for the analysis of data generated by various combinations of chromatography and mass spectrometry. We report here a web portal named KOMICS (The Kazusa Metabolomics Portal, where the tools and databases that we developed are available for free to academic users. KOMICS includes the tools and databases for preprocessing, mining, visualization, and publication of metabolomics data. Improvements in the annotation of unknown metabolites and dissemination of comprehensive metabolomic data are the primary aims behind the development of this portal. For this purpose, PowerGet and FragmentAlign include a manual curation function for the results of metabolite feature alignments. A metadata-specific wiki-based database, Metabolonote, functions as a hub of web resources related to the submitters' work. This feature is expected to increase citation of the submitters' work, thereby promoting data publication. As an example of the practical use of KOMICS, a workflow for a study on Jatropha curcas is presented. The tools and databases available at KOMICS should contribute to enhanced production, interpretation, and utilization of metabolomic Big Data.

  11. Tools and databases of the KOMICS web portal for preprocessing, mining, and dissemination of metabolomics data.

    Science.gov (United States)

    Sakurai, Nozomu; Ara, Takeshi; Enomoto, Mitsuo; Motegi, Takeshi; Morishita, Yoshihiko; Kurabayashi, Atsushi; Iijima, Yoko; Ogata, Yoshiyuki; Nakajima, Daisuke; Suzuki, Hideyuki; Shibata, Daisuke

    2014-01-01

    A metabolome--the collection of comprehensive quantitative data on metabolites in an organism--has been increasingly utilized for applications such as data-intensive systems biology, disease diagnostics, biomarker discovery, and assessment of food quality. A considerable number of tools and databases have been developed to date for the analysis of data generated by various combinations of chromatography and mass spectrometry. We report here a web portal named KOMICS (The Kazusa Metabolomics Portal), where the tools and databases that we developed are available for free to academic users. KOMICS includes the tools and databases for preprocessing, mining, visualization, and publication of metabolomics data. Improvements in the annotation of unknown metabolites and dissemination of comprehensive metabolomic data are the primary aims behind the development of this portal. For this purpose, PowerGet and FragmentAlign include a manual curation function for the results of metabolite feature alignments. A metadata-specific wiki-based database, Metabolonote, functions as a hub of web resources related to the submitters' work. This feature is expected to increase citation of the submitters' work, thereby promoting data publication. As an example of the practical use of KOMICS, a workflow for a study on Jatropha curcas is presented. The tools and databases available at KOMICS should contribute to enhanced production, interpretation, and utilization of metabolomic Big Data.

  12. Updates on resources, software tools, and databases for plant proteomics in 2016-2017.

    Science.gov (United States)

    Misra, Biswapriya B

    2018-02-08

    Proteomics data processing, annotation, and analysis can often lead to major hurdles in large-scale high-throughput bottom-up proteomics experiments. Given the recent rise in protein-based big datasets being generated, efforts in in silico tool development occurrences have had an unprecedented increase; so much so, that it has become increasingly difficult to keep track of all the advances in a particular academic year. However, these tools benefit the plant proteomics community in circumventing critical issues in data analysis and visualization, as these continually developing open-source and community-developed tools hold potential in future research efforts. This review will aim to introduce and summarize more than 50 software tools, databases, and resources developed and published during 2016-2017 under the following categories: tools for data pre-processing and analysis, statistical analysis tools, peptide identification tools, databases and spectral libraries, and data visualization and interpretation tools. Intended for a well-informed proteomics community, finally, efforts in data archiving and validation datasets for the community will be discussed as well. Additionally, the author delineates the current and most commonly used proteomics tools in order to introduce novice readers to this -omics discovery platform. © 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  13. 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.

  14. 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.

  15. Exposure Modeling Tools and Databases for Consideration for Relevance to the Amended TSCA (ISES)

    Science.gov (United States)

    The Agency’s Office of Research and Development (ORD) has a number of ongoing exposure modeling tools and databases. These efforts are anticipated to be useful in supporting ongoing implementation of the amended Toxic Substances Control Act (TSCA). Under ORD’s Chemic...

  16. jSPyDB, an open source database-independent tool for data management

    CERN Document Server

    Pierro, Giuseppe Antonio

    2010-01-01

    Nowadays, the number of commercial tools available for accessing Databases, built on Java or .Net, is increasing. However, many of these applications have several drawbacks: usually they are not open-source, they provide interfaces only with a specific kind of database, they are platform-dependent and very CPU and memory consuming. jSPyDB is a free web based tool written using Python and Javascript. It relies on jQuery and python libraries, and is intended to provide a simple handler to different Database technologies inside a local web browser. Such a tool, exploiting fast access libraries such as SQLAlchemy, is easy to install, and to configure. The design of this tool envisages three layers. The front-end client side in the local web browser communicates with a backend server. Only the server is able to connect to the different databases for the purposes of performing data definition and manipulation. The server makes the data available to the client, so that the user can display and handle them safely. ...

  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. Decision-Support Tools and Databases to Inform Regional Stormwater Utility Development in New England

    Science.gov (United States)

    Development of stormwater utilities requires information on existing stormwater infrastructure and impervious cover as well as costs and benefits of stormwater management options. US EPA has developed a suite of databases and tools that can inform decision-making by regional sto...

  19. Online Analytical Processing (OLAP: A Fast and Effective Data Mining Tool for Gene Expression Databases

    Directory of Open Access Journals (Sweden)

    Alkharouf Nadim W.

    2005-01-01

    Full Text Available Gene expression databases contain a wealth of information, but current data mining tools are limited in their speed and effectiveness in extracting meaningful biological knowledge from them. Online analytical processing (OLAP can be used as a supplement to cluster analysis for fast and effective data mining of gene expression databases. We used Analysis Services 2000, a product that ships with SQLServer2000, to construct an OLAP cube that was used to mine a time series experiment designed to identify genes associated with resistance of soybean to the soybean cyst nematode, a devastating pest of soybean. The data for these experiments is stored in the soybean genomics and microarray database (SGMD. A number of candidate resistance genes and pathways were found. Compared to traditional cluster analysis of gene expression data, OLAP was more effective and faster in finding biologically meaningful information. OLAP is available from a number of vendors and can work with any relational database management system through OLE DB.

  20. Online analytical processing (OLAP): a fast and effective data mining tool for gene expression databases.

    Science.gov (United States)

    Alkharouf, Nadim W; Jamison, D Curtis; Matthews, Benjamin F

    2005-06-30

    Gene expression databases contain a wealth of information, but current data mining tools are limited in their speed and effectiveness in extracting meaningful biological knowledge from them. Online analytical processing (OLAP) can be used as a supplement to cluster analysis for fast and effective data mining of gene expression databases. We used Analysis Services 2000, a product that ships with SQLServer2000, to construct an OLAP cube that was used to mine a time series experiment designed to identify genes associated with resistance of soybean to the soybean cyst nematode, a devastating pest of soybean. The data for these experiments is stored in the soybean genomics and microarray database (SGMD). A number of candidate resistance genes and pathways were found. Compared to traditional cluster analysis of gene expression data, OLAP was more effective and faster in finding biologically meaningful information. OLAP is available from a number of vendors and can work with any relational database management system through OLE DB.

  1. A web-based data visualization tool for the MIMIC-II database.

    Science.gov (United States)

    Lee, Joon; Ribey, Evan; Wallace, James R

    2016-02-04

    Although MIMIC-II, a public intensive care database, has been recognized as an invaluable resource for many medical researchers worldwide, becoming a proficient MIMIC-II researcher requires knowledge of SQL programming and an understanding of the MIMIC-II database schema. These are challenging requirements especially for health researchers and clinicians who may have limited computer proficiency. In order to overcome this challenge, our objective was to create an interactive, web-based MIMIC-II data visualization tool that first-time MIMIC-II users can easily use to explore the database. The tool offers two main features: Explore and Compare. The Explore feature enables the user to select a patient cohort within MIMIC-II and visualize the distributions of various administrative, demographic, and clinical variables within the selected cohort. The Compare feature enables the user to select two patient cohorts and visually compare them with respect to a variety of variables. The tool is also helpful to experienced MIMIC-II researchers who can use it to substantially accelerate the cumbersome and time-consuming steps of writing SQL queries and manually visualizing extracted data. Any interested researcher can use the MIMIC-II data visualization tool for free to quickly and conveniently conduct a preliminary investigation on MIMIC-II with a few mouse clicks. Researchers can also use the tool to learn the characteristics of the MIMIC-II patients. Since it is still impossible to conduct multivariable regression inside the tool, future work includes adding analytics capabilities. Also, the next version of the tool will aim to utilize MIMIC-III which contains more data.

  2. GPCALMA: A Tool For Mammography With A GRID-Connected Distributed Database

    International Nuclear Information System (INIS)

    Bottigli, U.; Golosio, B.; Masala, G.L.; Oliva, P.; Stumbo, S.; Cerello, P.; Cheran, S.; Delogu, P.; Fantacci, M.E.; Retico, A.; Fauci, F.; Magro, R.; Raso, G.; Lauria, A.; Palmiero, R.; Lopez Torres, E.; Tangaro, S.

    2003-01-01

    The GPCALMA (Grid Platform for Computer Assisted Library for MAmmography) collaboration involves several departments of physics, INFN (National Institute of Nuclear Physics) sections, and italian hospitals. The aim of this collaboration is developing a tool that can help radiologists in early detection of breast cancer. GPCALMA has built a large distributed database of digitised mammographic images (about 5500 images corresponding to 1650 patients) and developed a CAD (Computer Aided Detection) software which is integrated in a station that can also be used to acquire new images, as archive and to perform statistical analysis. The images (18x24 cm2, digitised by a CCD linear scanner with a 85 μm pitch and 4096 gray levels) are completely described: pathological ones have a consistent characterization with radiologist's diagnosis and histological data, non pathological ones correspond to patients with a follow up at least three years. The distributed database is realized through the connection of all the hospitals and research centers in GRID technology. In each hospital local patients digital images are stored in the local database. Using GRID connection, GPCALMA will allow each node to work on distributed database data as well as local database data. Using its database the GPCALMA tools perform several analysis. A texture analysis, i.e. an automated classification on adipose, dense or glandular texture, can be provided by the system. GPCALMA software also allows classification of pathological features, in particular massive lesions (both opacities and spiculated lesions) analysis and microcalcification clusters analysis. The detection of pathological features is made using neural network software that provides a selection of areas showing a given 'suspicion level' of lesion occurrence. The performance of the GPCALMA system will be presented in terms of the ROC (Receiver Operating Characteristic) curves. The results of GPCALMA system as 'second reader' will also

  3. PIPEMicroDB: microsatellite database and primer generation tool for pigeonpea genome.

    Science.gov (United States)

    Sarika; Arora, Vasu; Iquebal, M A; Rai, Anil; Kumar, Dinesh

    2013-01-01

    Molecular markers play a significant role for crop improvement in desirable characteristics, such as high yield, resistance to disease and others that will benefit the crop in long term. Pigeonpea (Cajanus cajan L.) is the recently sequenced legume by global consortium led by ICRISAT (Hyderabad, India) and been analysed for gene prediction, synteny maps, markers, etc. We present PIgeonPEa Microsatellite DataBase (PIPEMicroDB) with an automated primer designing tool for pigeonpea genome, based on chromosome wise as well as location wise search of primers. Total of 123 387 Short Tandem Repeats (STRs) were extracted from pigeonpea genome, available in public domain using MIcroSAtellite tool (MISA). The database is an online relational database based on 'three-tier architecture' that catalogues information of microsatellites in MySQL and user-friendly interface is developed using PHP. Search for STRs may be customized by limiting their location on chromosome as well as number of markers in that range. This is a novel approach and is not been implemented in any of the existing marker database. This database has been further appended with Primer3 for primer designing of selected markers with left and right flankings of size up to 500 bp. This will enable researchers to select markers of choice at desired interval over the chromosome. Furthermore, one can use individual STRs of a targeted region over chromosome to narrow down location of gene of interest or linked Quantitative Trait Loci (QTLs). Although it is an in silico approach, markers' search based on characteristics and location of STRs is expected to be beneficial for researchers. Database URL: http://cabindb.iasri.res.in/pigeonpea/

  4. Screening of Gas-Cooled Reactor Thermal-Hydraulic and Safety Analysis Tools and Experimental Database

    International Nuclear Information System (INIS)

    Lee, Won Jae; Kim, Min Hwan; Lee, Seung Wook

    2007-08-01

    This report is a final report of I-NERI Project, 'Screening of Gas-cooled Reactor Thermal Hydraulic and Safety Analysis Tools and Experimental Database 'jointly carried out by KAERI, ANL and INL. In this study, we developed the basic technologies required to develop and validate the VHTR TH/safety analysis tools and evaluated the TH/safety database information. The research tasks consist of; 1) code qualification methodology (INL), 2) high-level PIRTs for major nucleus set of events (KAERI, ANL, INL), 3) initial scaling and scoping analysis (ANL, KAERI, INL), 4) filtering of TH/safety tools (KAERI, INL), 5) evaluation of TH/safety database information (KAERI, INL, ANL) and 6) key scoping analysis (KAERI). The code qualification methodology identifies the role of PIRTs in the R and D process and the bottom-up and top-down code validation methods. Since the design of VHTR is still evolving, we generated the high-level PIRTs referencing 600MWth block-type GT-MHR and 400MWth pebble-type PBMR. Nucleus set of events that represents the VHTR safety and operational transients consists of the enveloping scenarios of HPCC (high pressure conduction cooling: loss of primary flow), LPCC/Air-Ingress (low pressure conduction cooling: loss of coolant), LC (load changes: power maneuvering), ATWS (anticipated transients without scram: reactivity insertion), WS (water ingress: water-interfacing system break) and HU (hydrogen-side upset: loss of heat sink). The initial scaling analysis defines dimensionless parameters that need to be reflected in mixed convection modeling and the initial scoping analysis provided the reference system transients used in the PIRTs generation. For the PIRTs phenomena, we evaluated the modeling capability of the candidate TH/safety tools and derived a model improvement need. By surveying and evaluating the TH/safety database information, a tools V and V matrix has been developed. Through the key scoping analysis using available database, the modeling

  5. Screening of Gas-Cooled Reactor Thermal-Hydraulic and Safety Analysis Tools and Experimental Database

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Won Jae; Kim, Min Hwan; Lee, Seung Wook (and others)

    2007-08-15

    This report is a final report of I-NERI Project, 'Screening of Gas-cooled Reactor Thermal Hydraulic and Safety Analysis Tools and Experimental Database 'jointly carried out by KAERI, ANL and INL. In this study, we developed the basic technologies required to develop and validate the VHTR TH/safety analysis tools and evaluated the TH/safety database information. The research tasks consist of; 1) code qualification methodology (INL), 2) high-level PIRTs for major nucleus set of events (KAERI, ANL, INL), 3) initial scaling and scoping analysis (ANL, KAERI, INL), 4) filtering of TH/safety tools (KAERI, INL), 5) evaluation of TH/safety database information (KAERI, INL, ANL) and 6) key scoping analysis (KAERI). The code qualification methodology identifies the role of PIRTs in the R and D process and the bottom-up and top-down code validation methods. Since the design of VHTR is still evolving, we generated the high-level PIRTs referencing 600MWth block-type GT-MHR and 400MWth pebble-type PBMR. Nucleus set of events that represents the VHTR safety and operational transients consists of the enveloping scenarios of HPCC (high pressure conduction cooling: loss of primary flow), LPCC/Air-Ingress (low pressure conduction cooling: loss of coolant), LC (load changes: power maneuvering), ATWS (anticipated transients without scram: reactivity insertion), WS (water ingress: water-interfacing system break) and HU (hydrogen-side upset: loss of heat sink). The initial scaling analysis defines dimensionless parameters that need to be reflected in mixed convection modeling and the initial scoping analysis provided the reference system transients used in the PIRTs generation. For the PIRTs phenomena, we evaluated the modeling capability of the candidate TH/safety tools and derived a model improvement need. By surveying and evaluating the TH/safety database information, a tools V and V matrix has been developed. Through the key scoping analysis using available database, the

  6. Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing

    Science.gov (United States)

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

    2013-01-01

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

  7. PRIDE and "Database on Demand" as valuable tools for computational proteomics.

    Science.gov (United States)

    Vizcaíno, Juan Antonio; Reisinger, Florian; Côté, Richard; Martens, Lennart

    2011-01-01

    The Proteomics Identifications Database (PRIDE, http://www.ebi.ac.uk/pride ) provides users with the ability to explore and compare mass spectrometry-based proteomics experiments that reveal details of the protein expression found in a broad range of taxonomic groups, tissues, and disease states. A PRIDE experiment typically includes identifications of proteins, peptides, and protein modifications. Additionally, many of the submitted experiments also include the mass spectra that provide the evidence for these identifications. Finally, one of the strongest advantages of PRIDE in comparison with other proteomics repositories is the amount of metadata it contains, a key point to put the above-mentioned data in biological and/or technical context. Several informatics tools have been developed in support of the PRIDE database. The most recent one is called "Database on Demand" (DoD), which allows custom sequence databases to be built in order to optimize the results from search engines. We describe the use of DoD in this chapter. Additionally, in order to show the potential of PRIDE as a source for data mining, we also explore complex queries using federated BioMart queries to integrate PRIDE data with other resources, such as Ensembl, Reactome, or UniProt.

  8. Coordination through databases can improve prescribed burning as a conservation tool to promote forest biodiversity.

    Science.gov (United States)

    Ramberg, Ellinor; Strengbom, Joachim; Granath, Gustaf

    2018-04-01

    Prescribed fires are a common nature conservation practice. They are executed by several parties with limited coordination among them, and little consideration for wildfire occurrences and habitat requirements of fire-dependent species. Here, we gathered data on prescribed fires and wildfires in Sweden during 2011-2015 to (i) evaluate the importance and spatial extent of prescribed fires compared to wildfires and (ii) illustrate how a database can be used as a management tool for prescribed fires. We found that on average only 0.006% (prescribed 65%, wildfires 35%) of the Swedish forest burns per year, with 58% of the prescribed fires occurring on clearcuts. Also, both wildfires and prescribed fires seem to be important for the survival of fire-dependent species. A national fire database would simplify coordination and make planning and evaluation of prescribed fires more efficient. We propose an adaptive management strategy to improve the outcome of prescribed fires.

  9. Migration check tool: automatic plan verification following treatment management systems upgrade and database migration.

    Science.gov (United States)

    Hadley, Scott W; White, Dale; Chen, Xiaoping; Moran, Jean M; Keranen, Wayne M

    2013-11-04

    Software upgrades of the treatment management system (TMS) sometimes require that all data be migrated from one version of the database to another. It is necessary to verify that the data are correctly migrated to assure patient safety. It is impossible to verify by hand the thousands of parameters that go into each patient's radiation therapy treatment plan. Repeating pretreatment QA is costly, time-consuming, and may be inadequate in detecting errors that are introduced during the migration. In this work we investigate the use of an automatic Plan Comparison Tool to verify that plan data have been correctly migrated to a new version of a TMS database from an older version. We developed software to query and compare treatment plans between different versions of the TMS. The same plan in the two TMS systems are translated into an XML schema. A plan comparison module takes the two XML schemas as input and reports any differences in parameters between the two versions of the same plan by applying a schema mapping. A console application is used to query the database to obtain a list of active or in-preparation plans to be tested. It then runs in batch mode to compare all the plans, and a report of success or failure of the comparison is saved for review. This software tool was used as part of software upgrade and database migration from Varian's Aria 8.9 to Aria 11 TMS. Parameters were compared for 358 treatment plans in 89 minutes. This direct comparison of all plan parameters in the migrated TMS against the previous TMS surpasses current QA methods that relied on repeating pretreatment QA measurements or labor-intensive and fallible hand comparisons.

  10. Knowledge base technology for CT-DIMS: Report 1. [CT-DIMS (Cutting Tool - Database and Information Management System)

    Energy Technology Data Exchange (ETDEWEB)

    Kelley, E.E.

    1993-05-01

    This report discusses progress on the Cutting Tool-Database and Information Management System (CT-DIMS) project being conducted by the University of Illinois Urbana-Champaign (UIUC) under contract to the Department of Energy. This project was initiated in October 1991 by UIUC. The Knowledge-Based Engineering Systems Research Laboratory (KBESRL) at UIUC is developing knowledge base technology and prototype software for the presentation and manipulation of the cutting tool databases at Allied-Signal Inc., Kansas City Division (KCD). The graphical tool selection capability being developed for CT-DIMS in the Intelligent Design Environment for Engineering Automation (IDEEA) will provide a concurrent environment for simultaneous access to tool databases, tool standard libraries, and cutting tool knowledge.

  11. GarlicESTdb: an online database and mining tool for garlic EST sequences

    Directory of Open Access Journals (Sweden)

    Choi Sang-Haeng

    2009-05-01

    Full Text Available Abstract Background Allium sativum., commonly known as garlic, is a species in the onion genus (Allium, which is a large and diverse one containing over 1,250 species. Its close relatives include chives, onion, leek and shallot. Garlic has been used throughout recorded history for culinary, medicinal use and health benefits. Currently, the interest in garlic is highly increasing due to nutritional and pharmaceutical value including high blood pressure and cholesterol, atherosclerosis and cancer. For all that, there are no comprehensive databases available for Expressed Sequence Tags(EST of garlic for gene discovery and future efforts of genome annotation. That is why we developed a new garlic database and applications to enable comprehensive analysis of garlic gene expression. Description GarlicESTdb is an integrated database and mining tool for large-scale garlic (Allium sativum EST sequencing. A total of 21,595 ESTs collected from an in-house cDNA library were used to construct the database. The analysis pipeline is an automated system written in JAVA and consists of the following components: automatic preprocessing of EST reads, assembly of raw sequences, annotation of the assembled sequences, storage of the analyzed information into MySQL databases, and graphic display of all processed data. A web application was implemented with the latest J2EE (Java 2 Platform Enterprise Edition software technology (JSP/EJB/JavaServlet for browsing and querying the database, for creation of dynamic web pages on the client side, and for mapping annotated enzymes to KEGG pathways, the AJAX framework was also used partially. The online resources, such as putative annotation, single nucleotide polymorphisms (SNP and tandem repeat data sets, can be searched by text, explored on the website, searched using BLAST, and downloaded. To archive more significant BLAST results, a curation system was introduced with which biologists can easily edit best-hit annotation

  12. GarlicESTdb: an online database and mining tool for garlic EST sequences.

    Science.gov (United States)

    Kim, Dae-Won; Jung, Tae-Sung; Nam, Seong-Hyeuk; Kwon, Hyuk-Ryul; Kim, Aeri; Chae, Sung-Hwa; Choi, Sang-Haeng; Kim, Dong-Wook; Kim, Ryong Nam; Park, Hong-Seog

    2009-05-18

    Allium sativum., commonly known as garlic, is a species in the onion genus (Allium), which is a large and diverse one containing over 1,250 species. Its close relatives include chives, onion, leek and shallot. Garlic has been used throughout recorded history for culinary, medicinal use and health benefits. Currently, the interest in garlic is highly increasing due to nutritional and pharmaceutical value including high blood pressure and cholesterol, atherosclerosis and cancer. For all that, there are no comprehensive databases available for Expressed Sequence Tags(EST) of garlic for gene discovery and future efforts of genome annotation. That is why we developed a new garlic database and applications to enable comprehensive analysis of garlic gene expression. GarlicESTdb is an integrated database and mining tool for large-scale garlic (Allium sativum) EST sequencing. A total of 21,595 ESTs collected from an in-house cDNA library were used to construct the database. The analysis pipeline is an automated system written in JAVA and consists of the following components: automatic preprocessing of EST reads, assembly of raw sequences, annotation of the assembled sequences, storage of the analyzed information into MySQL databases, and graphic display of all processed data. A web application was implemented with the latest J2EE (Java 2 Platform Enterprise Edition) software technology (JSP/EJB/JavaServlet) for browsing and querying the database, for creation of dynamic web pages on the client side, and for mapping annotated enzymes to KEGG pathways, the AJAX framework was also used partially. The online resources, such as putative annotation, single nucleotide polymorphisms (SNP) and tandem repeat data sets, can be searched by text, explored on the website, searched using BLAST, and downloaded. To archive more significant BLAST results, a curation system was introduced with which biologists can easily edit best-hit annotation information for others to view. The Garlic

  13. Application of bioinformatics tools and databases in microbial dehalogenation research (a review).

    Science.gov (United States)

    Satpathy, R; Konkimalla, V B; Ratha, J

    2015-01-01

    Microbial dehalogenation is a biochemical process in which the halogenated substances are catalyzed enzymatically in to their non-halogenated form. The microorganisms have a wide range of organohalogen degradation ability both explicit and non-specific in nature. Most of these halogenated organic compounds being pollutants need to be remediated; therefore, the current approaches are to explore the potential of microbes at a molecular level for effective biodegradation of these substances. Several microorganisms with dehalogenation activity have been identified and characterized. In this aspect, the bioinformatics plays a key role to gain deeper knowledge in this field of dehalogenation. To facilitate the data mining, many tools have been developed to annotate these data from databases. Therefore, with the discovery of a microorganism one can predict a gene/protein, sequence analysis, can perform structural modelling, metabolic pathway analysis, biodegradation study and so on. This review highlights various methods of bioinformatics approach that describes the application of various databases and specific tools in the microbial dehalogenation fields with special focus on dehalogenase enzymes. Attempts have also been made to decipher some recent applications of in silico modeling methods that comprise of gene finding, protein modelling, Quantitative Structure Biodegradibility Relationship (QSBR) study and reconstruction of metabolic pathways employed in dehalogenation research area.

  14. Accessing the SEED genome databases via Web services API: tools for programmers.

    Science.gov (United States)

    Disz, Terry; Akhter, Sajia; Cuevas, Daniel; Olson, Robert; Overbeek, Ross; Vonstein, Veronika; Stevens, Rick; Edwards, Robert A

    2010-06-14

    The SEED integrates many publicly available genome sequences into a single resource. The database contains accurate and up-to-date annotations based on the subsystems concept that leverages clustering between genomes and other clues to accurately and efficiently annotate microbial genomes. The backend is used as the foundation for many genome annotation tools, such as the Rapid Annotation using Subsystems Technology (RAST) server for whole genome annotation, the metagenomics RAST server for random community genome annotations, and the annotation clearinghouse for exchanging annotations from different resources. In addition to a web user interface, the SEED also provides Web services based API for programmatic access to the data in the SEED, allowing the development of third-party tools and mash-ups. The currently exposed Web services encompass over forty different methods for accessing data related to microbial genome annotations. The Web services provide comprehensive access to the database back end, allowing any programmer access to the most consistent and accurate genome annotations available. The Web services are deployed using a platform independent service-oriented approach that allows the user to choose the most suitable programming platform for their application. Example code demonstrate that Web services can be used to access the SEED using common bioinformatics programming languages such as Perl, Python, and Java. We present a novel approach to access the SEED database. Using Web services, a robust API for access to genomics data is provided, without requiring large volume downloads all at once. The API ensures timely access to the most current datasets available, including the new genomes as soon as they come online.

  15. The hydrogeological well database TANGRAM©: a tool for data processing to support groundwater assessment

    Directory of Open Access Journals (Sweden)

    Tullia Bonomi

    2014-06-01

    Full Text Available At the Department of Earth and Environmental Sciences of the University of Milano-Bicocca (DISAT-UNIMIB, a hydrogeological well database, called TANGRAM©, has been developed and published on line at www.TANGRAM.samit.unimib.it, developing an earlier 1989 DOS version. This package can be used to store, display, and process all data related to water wells, including administrative information, well characteristics, stratigraphic logs, water levels, pumping rates, and other hydrogeological information. Currently, the database contains more than 39.200 wells located in the Italian region of Lombardy (90%, Piedmont (9% and Valle d’Aosta (1%. TANGRAM© has been created both as a tool for researches and for public administration’s administrators who have projects in common with DISAT-UNIMIB. Indeed, transferring wells data from paper into TANGRAM© offers both an easier and more robust way to correlate hydrogeological data and a more organized management of the administrative information. Some Administrations use TANGRAM© regularly as a tool for wells data management (Brescia Province, ARPA Valle Aosta. An innovative aspect of the database is the quantitative extraction of stratigraphic data. In the part of the software intended for research purposes, all well logs are translated into 8-digit alphanumeric codes and the user composes the code interpreting the description at each stratigraphic level. So the stratigraphic well data can be coded, then quantified and processed. This is made possible by attributing a weight to the digits of the code for textures. The program calculates the weighted percentage of the chosen lithology, as related to each individual layer. These extractions are the starting point for subsequent hydrogeological studies: well head protection area, reconstruction of the dynamics of flow, realization of the quarry plans and flux and transport hydrogeological models. The results of a two-dimensional distribution of coarse

  16. 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

  17. REALIZING BUSINESS PROCESS MANAGEMENT BY HELP OF A PROCESS MAPPING DATABASE TOOL

    CERN Document Server

    Vergili, Ceren

    2016-01-01

    In a typical business sector, processes are the building blocks of the achievement. A considerable percentage of the processes are consisting of business processes. This fact is bringing the fact that business sectors are in need of a management discipline. Business Process Management (BPM) is a discipline that combines modelling, automation, execution, control, measurement, and optimization of process by considering enterprise goals, spanning systems, employees, customers, and partners. CERN’s EN – HE – HM section desires to apply the BPM discipline appropriately for improving their necessary technical, administrative and managerial actions to supply appropriate CERN industrial transport, handling and lifting equipment and to maintain it. For this reason, a Process Mapping Database Tool is created to develop a common understanding about how the section members can visualize their processes, agree on quality standards and on how to improve. It provides a management support by establishing Process Charts...

  18. Considerations and benefits of implementing an online database tool for business continuity.

    Science.gov (United States)

    Mackinnon, Susanne; Pinette, Jennifer

    2016-01-01

    In today's challenging climate of ongoing fiscal restraints, limited resources and complex organisational structures there is an acute need to investigate opportunities to facilitate enhanced delivery of business continuity programmes while maintaining or increasing acceptable levels of service delivery. In 2013, Health Emergency Management British Columbia (HEMBC), responsible for emergency management and business continuity activities across British Columbia's health sector, transitioned its business continuity programme from a manual to automated process with the development of a customised online database, known as the Health Emergency Management Assessment Tool (HEMAT). Key benefits to date include a more efficient business continuity input process, immediate situational awareness for use in emergency response and/or advanced planning and streamlined analyses for generation of reports.

  19. The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats

    Directory of Open Access Journals (Sweden)

    Vergnaud Gilles

    2007-05-01

    Full Text Available Abstract Background In Archeae and Bacteria, the repeated elements called CRISPRs for "clustered regularly interspaced short palindromic repeats" are believed to participate in the defence against viruses. Short sequences called spacers are stored in-between repeated elements. In the current model, motifs comprising spacers and repeats may target an invading DNA and lead to its degradation through a proposed mechanism similar to RNA interference. Analysis of intra-species polymorphism shows that new motifs (one spacer and one repeated element are added in a polarised fashion. Although their principal characteristics have been described, a lot remains to be discovered on the way CRISPRs are created and evolve. As new genome sequences become available it appears necessary to develop automated scanning tools to make available CRISPRs related information and to facilitate additional investigations. Description We have produced a program, CRISPRFinder, which identifies CRISPRs and extracts the repeated and unique sequences. Using this software, a database is constructed which is automatically updated monthly from newly released genome sequences. Additional tools were created to allow the alignment of flanking sequences in search for similarities between different loci and to build dictionaries of unique sequences. To date, almost six hundred CRISPRs have been identified in 475 published genomes. Two Archeae out of thirty-seven and about half of Bacteria do not possess a CRISPR. Fine analysis of repeated sequences strongly supports the current view that new motifs are added at one end of the CRISPR adjacent to the putative promoter. Conclusion It is hoped that availability of a public database, regularly updated and which can be queried on the web will help in further dissecting and understanding CRISPR structure and flanking sequences evolution. Subsequent analyses of the intra-species CRISPR polymorphism will be facilitated by CRISPRFinder and the

  20. GENIUS: A tool for multi-disciplinary and multi-scalar databases

    Science.gov (United States)

    Bonhomme, M.; Masson, V.; Adolphe, L.; Faraut, S.

    2013-12-01

    Cities are responsible for the majority of energy consumption on the planet. As a consequence, researches regarding energy use in urban context have been increasing for the last decades. Recently the interrelationship between city, energy consumption and urban microclimate appeared as a key component of urban sustainability. To be accurate, those studies must take into account a multidisciplinary urban context and modelling tools need high definition data. Nevertheless, at the city scale, input data is either imprecise or only available for small areas. In particular, there is a lack of information about buildings footprints, roofs sloping, envelope materials, etc. Moreover, the existing data do not allow researchers to explore prospective issues such as climate change or future urban development. In this sense, we developed a new tool called GENIUS (GENerator of Interactive Urban blockS) to build high definition and evolutionary maps from available databases. GENIUS creates maps composed of archetypical neighbourhood coming as shape-files of polygons with additional information (height, age, use, thermal insulation, etc.). Those archetypical neighbourhoods come to seven types of urban blocks that can be found in most European cities. Those types can be compared with Stewart and Oke Local Climate Zones (LCZ). The first step of our method is to transform an existing map into an 'archetypical map'. To do this, the urban database of the IGN (French Geographical Institute) was used. The maps were divided into cells of 250 meters resolution. For each cell, about 40 morphological indicators were calculated. Seven groups of blocks were then identified by means of Principal Component Analysis. GENIUS databases are also able to evolve through time. As a matter of fact, the initial map is transformed, year after year, by taking into account changes in density and urban history. In that sense, GENIUS communicates with NEDUM, a model developed by the CIRED (International

  1. Discerning molecular interactions: A comprehensive review on biomolecular interaction databases and network analysis tools.

    Science.gov (United States)

    Miryala, Sravan Kumar; Anbarasu, Anand; Ramaiah, Sudha

    2018-02-05

    Computational analysis of biomolecular interaction networks is now gaining a lot of importance to understand the functions of novel genes/proteins. Gene interaction (GI) network analysis and protein-protein interaction (PPI) network analysis play a major role in predicting the functionality of interacting genes or proteins and gives an insight into the functional relationships and evolutionary conservation of interactions among the genes. An interaction network is a graphical representation of gene/protein interactome, where each gene/protein is a node, and interaction between gene/protein is an edge. In this review, we discuss the popular open source databases that serve as data repositories to search and collect protein/gene interaction data, and also tools available for the generation of interaction network, visualization and network analysis. Also, various network analysis approaches like topological approach and clustering approach to study the network properties and functional enrichment server which illustrates the functions and pathway of the genes and proteins has been discussed. Hence the distinctive attribute mentioned in this review is not only to provide an overview of tools and web servers for gene and protein-protein interaction (PPI) network analysis but also to extract useful and meaningful information from the interaction networks. Copyright © 2017 Elsevier B.V. All rights reserved.

  2. International Reactor Physics Handbook Database and Analysis Tool (IDAT) - IDAT user manual

    International Nuclear Information System (INIS)

    2013-01-01

    The IRPhEP Database and Analysis Tool (IDAT) was first released in 2013 and is included on the DVD. This database and corresponding user interface allows easy access to handbook information. Selected information from each configuration was entered into IDAT, such as the measurements performed, benchmark values, calculated values and materials specifications of the benchmark. In many cases this is supplemented with calculated data such as neutron balance data, spectra data, k-eff nuclear data sensitivities, and spatial reaction rate plots. IDAT accomplishes two main objectives: 1. Allow users to search the handbook for experimental configurations that satisfy their input criteria. 2. Allow users to trend results and identify suitable benchmarks experiments for their application. IDAT provides the user with access to several categories of calculated data, including: - 1-group neutron balance data for each configuration with individual isotope contributions in the reactor system. - Flux and other reaction rates spectra in a 299-group energy scheme. Plotting capabilities were implemented into IDAT allowing the user to compare the spectra of selected configurations in the original fine energy structure or on any user-defined broader energy structure. - Sensitivity coefficients (percent changes of k-effective due to elementary change of basic nuclear data) for the major nuclides and nuclear processes in a 238-group energy structure. IDAT is actively being developed. Those approved to access the online version of the handbook will also have access to an online version of IDAT. As May 2013 marks the first release, IDAT may contain data entry errors and omissions. The handbook remains the primary source of reactor physics benchmark data. A copy of IDAT user's manual is attached to this document. A copy of the IRPhE Handbook can be obtained on request at http://www.oecd-nea.org/science/wprs/irphe/irphe-handbook/form.html

  3. ProBiS tools (algorithm, database, and web servers) for predicting and modeling of biologically interesting proteins.

    Science.gov (United States)

    Konc, Janez; Janežič, Dušanka

    2017-09-01

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

  4. Canis mtDNA HV1 database: a web-based tool for collecting and surveying Canis mtDNA HV1 haplotype in public database.

    Science.gov (United States)

    Thai, Quan Ke; Chung, Dung Anh; Tran, Hoang-Dung

    2017-06-26

    Canine and wolf mitochondrial DNA haplotypes, which can be used for forensic or phylogenetic analyses, have been defined in various schemes depending on the region analyzed. In recent studies, the 582 bp fragment of the HV1 region is most commonly used. 317 different canine HV1 haplotypes have been reported in the rapidly growing public database GenBank. These reported haplotypes contain several inconsistencies in their haplotype information. To overcome this issue, we have developed a Canis mtDNA HV1 database. This database collects data on the HV1 582 bp region in dog mitochondrial DNA from the GenBank to screen and correct the inconsistencies. It also supports users in detection of new novel mutation profiles and assignment of new haplotypes. The Canis mtDNA HV1 database (CHD) contains 5567 nucleotide entries originating from 15 subspecies in the species Canis lupus. Of these entries, 3646 were haplotypes and grouped into 804 distinct sequences. 319 sequences were recognized as previously assigned haplotypes, while the remaining 485 sequences had new mutation profiles and were marked as new haplotype candidates awaiting further analysis for haplotype assignment. Of the 3646 nucleotide entries, only 414 were annotated with correct haplotype information, while 3232 had insufficient or lacked haplotype information and were corrected or modified before storing in the CHD. The CHD can be accessed at http://chd.vnbiology.com . It provides sequences, haplotype information, and a web-based tool for mtDNA HV1 haplotyping. The CHD is updated monthly and supplies all data for download. The Canis mtDNA HV1 database contains information about canine mitochondrial DNA HV1 sequences with reconciled annotation. It serves as a tool for detection of inconsistencies in GenBank and helps identifying new HV1 haplotypes. Thus, it supports the scientific community in naming new HV1 haplotypes and to reconcile existing annotation of HV1 582 bp sequences.

  5. Information Management Tools for Classrooms: Exploring Database Management Systems. Technical Report No. 28.

    Science.gov (United States)

    Freeman, Carla; And Others

    In order to understand how the database software or online database functioned in the overall curricula, the use of database management (DBMs) systems was studied at eight elementary and middle schools through classroom observation and interviews with teachers and administrators, librarians, and students. Three overall areas were addressed:…

  6. Marine sediment cores database for the Mediterranean Basin: a tool for past climatic and environmental studies

    Science.gov (United States)

    Alberico, I.; Giliberti, I.; Insinga, D. D.; Petrosino, P.; Vallefuoco, M.; Lirer, F.; Bonomo, S.; Cascella, A.; Anzalone, E.; Barra, R.; Marsella, E.; Ferraro, L.

    2017-06-01

    Paleoclimatic data are essential for fingerprinting the climate of the earth before the advent of modern recording instruments. They enable us to recognize past climatic events and predict future trends. Within this framework, a conceptual and logical model was drawn to physically implement a paleoclimatic database named WDB-Paleo that includes the paleoclimatic proxies data of marine sediment cores of the Mediterranean Basin. Twenty entities were defined to record four main categories of data: a) the features of oceanographic cruises and cores (metadata); b) the presence/absence of paleoclimatic proxies pulled from about 200 scientific papers; c) the quantitative analysis of planktonic and benthonic foraminifera, pollen, calcareous nannoplankton, magnetic susceptibility, stable isotopes, radionuclides values of about 14 cores recovered by Institute for Coastal Marine Environment (IAMC) of Italian National Research Council (CNR) in the framework of several past research projects; d) specific entities recording quantitative data on δ18O, AMS 14C (Accelerator Mass Spectrometry) and tephra layers available in scientific papers. Published data concerning paleoclimatic proxies in the Mediterranean Basin are recorded only for 400 out of 6000 cores retrieved in the area and they show a very irregular geographical distribution. Moreover, the data availability decreases when a constrained time interval is investigated or more than one proxy is required. We present three applications of WDB-Paleo for the Younger Dryas (YD) paleoclimatic event at Mediterranean scale and point out the potentiality of this tool for integrated stratigraphy studies.

  7. Unraveling the web of viroinformatics: computational tools and databases in virus research.

    Science.gov (United States)

    Sharma, Deepak; Priyadarshini, Pragya; Vrati, Sudhanshu

    2015-02-01

    The beginning of the second century of research in the field of virology (the first virus was discovered in 1898) was marked by its amalgamation with bioinformatics, resulting in the birth of a new domain--viroinformatics. The availability of more than 100 Web servers and databases embracing all or specific viruses (for example, dengue virus, influenza virus, hepatitis virus, human immunodeficiency virus [HIV], hemorrhagic fever virus [HFV], human papillomavirus [HPV], West Nile virus, etc.) as well as distinct applications (comparative/diversity analysis, viral recombination, small interfering RNA [siRNA]/short hairpin RNA [shRNA]/microRNA [miRNA] studies, RNA folding, protein-protein interaction, structural analysis, and phylotyping and genotyping) will definitely aid the development of effective drugs and vaccines. However, information about their access and utility is not available at any single source or on any single platform. Therefore, a compendium of various computational tools and resources dedicated specifically to virology is presented in this article. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

  8. Best Basis Inventory Maintenance Tool (BBIM) Database Description and User Guide

    International Nuclear Information System (INIS)

    TRAN, T.T.

    2000-01-01

    The Best Basis Inventory Maintenance Tool (BBIM) is a computer database application with built-in calculations that model the chemical composition of the Hanford tank wastes in terms of three fundamental parameters: (1) Analyte concentration; (2) Waste density; and (3) Waste volume. Using these parameters, the BBIM is able to calculate for all of the Best-Basis constituents in each of the 177 tanks: (1) Total tank waste inventories; (2) Phase-based inventories; and (3) Phase-based concentrations. Calculations are handled differently depending upon the pedigree or type of the underlying data; for example, the input concentration could be in solid units, such as ''ug/g'' or in liquid units, such as ''ug/mL''. In each of these cases, there would be slight variations to the basic inventory calculation formula (Concentration - Density - Volume). In addition to calculating inventories, the BBIM also documents the source of the underlying data and how the calculations were performed. An enhancement is planned for 1Q00 to account for wastes transferred between tanks. When this is in place, the BBIM will be able to reflect ongoing Tank Farm operations, and will continuously (with a slight lag behind operational activities) maintain the documented best-basis inventory

  9. Assessment and application of national environmental databases and mapping tools at the local level to two community case studies.

    Science.gov (United States)

    Hammond, Davyda; Conlon, Kathryn; Barzyk, Timothy; Chahine, Teresa; Zartarian, Valerie; Schultz, Brad

    2011-03-01

    Communities are concerned over pollution levels and seek methods to systematically identify and prioritize the environmental stressors in their communities. Geographic information system (GIS) maps of environmental information can be useful tools for communities in their assessment of environmental-pollution-related risks. Databases and mapping tools that supply community-level estimates of ambient concentrations of hazardous pollutants, risk, and potential health impacts can provide relevant information for communities to understand, identify, and prioritize potential exposures and risk from multiple sources. An assessment of existing databases and mapping tools was conducted as part of this study to explore the utility of publicly available databases, and three of these databases were selected for use in a community-level GIS mapping application. Queried data from the U.S. EPA's National-Scale Air Toxics Assessment, Air Quality System, and National Emissions Inventory were mapped at the appropriate spatial and temporal resolutions for identifying risks of exposure to air pollutants in two communities. The maps combine monitored and model-simulated pollutant and health risk estimates, along with local survey results, to assist communities with the identification of potential exposure sources and pollution hot spots. Findings from this case study analysis will provide information to advance the development of new tools to assist communities with environmental risk assessments and hazard prioritization. © 2010 Society for Risk Analysis.

  10. The Use of PDB database as a Tool for Biochemistry Active Learning of Undergraduate Students

    Directory of Open Access Journals (Sweden)

    T.M.F. Günther et al.

    2017-07-01

    .50% and 66.60% also referred others databases. Surprisingly, PDB number was less mentioned(12.83%. Conclusions: Scientific curated information on PDB is an excellent digital resource, with tools capable to improve Biochemistry skills through the active learning process.

  11. The TNO Vehicle Dynamics Database (VDD): a tool for comparision of vehicle dynamics behaviour

    NARCIS (Netherlands)

    Kleuskens, R.J.A.

    1996-01-01

    TNO has started a database containing data of vehicle dynamics properties of passenger cars, based on the results of eight objective ISO driving tests. From this database, car manufacturers and their suppliers can get the required information for design and marketing purposes in a fast and

  12. An empirical modeling tool and glass property database in development of US-DOE radioactive waste glasses

    International Nuclear Information System (INIS)

    Muller, I.; Gan, H.

    1997-01-01

    An integrated glass database has been developed at the Vitreous State Laboratory of Catholic University of America. The major objective of this tool was to support glass formulation using the MAWS approach (Minimum Additives Waste Stabilization). An empirical modeling capability, based on the properties of over 1000 glasses in the database, was also developed to help formulate glasses from waste streams under multiple user-imposed constraints. The use of this modeling capability, the performance of resulting models in predicting properties of waste glasses, and the correlation of simple structural theories to glass properties are the subjects of this paper. (authors)

  13. The International Experimental Thermal Hydraulic Systems database – TIETHYS: A new NEA validation tool

    Energy Technology Data Exchange (ETDEWEB)

    Rohatgi, Upendra S.

    2018-07-22

    Nuclear reactor codes require validation with appropriate data representing the plant for specific scenarios. The thermal-hydraulic data is scattered in different locations and in different formats. Some of the data is in danger of being lost. A relational database is being developed to organize the international thermal hydraulic test data for various reactor concepts and different scenarios. At the reactor system level, that data is organized to include separate effect tests and integral effect tests for specific scenarios and corresponding phenomena. The database relies on the phenomena identification sections of expert developed PIRTs. The database will provide a summary of appropriate data, review of facility information, test description, instrumentation, references for the experimental data and some examples of application of the data for validation. The current database platform includes scenarios for PWR, BWR, VVER, and specific benchmarks for CFD modelling data and is to be expanded to include references for molten salt reactors. There are place holders for high temperature gas cooled reactors, CANDU and liquid metal reactors. This relational database is called The International Experimental Thermal Hydraulic Systems (TIETHYS) database and currently resides at Nuclear Energy Agency (NEA) of the OECD and is freely open to public access. Going forward the database will be extended to include additional links and data as they become available. https://www.oecd-nea.org/tiethysweb/

  14. Pepper EST database: comprehensive in silico tool for analyzing the chili pepper (Capsicum annuum transcriptome

    Directory of Open Access Journals (Sweden)

    Kim Woo Taek

    2008-10-01

    Full Text Available Abstract Background There is no dedicated database available for Expressed Sequence Tags (EST of the chili pepper (Capsicum annuum, although the interest in a chili pepper EST database is increasing internationally due to the nutritional, economic, and pharmaceutical value of the plant. Recent advances in high-throughput sequencing of the ESTs of chili pepper cv. Bukang have produced hundreds of thousands of complementary DNA (cDNA sequences. Therefore, a chili pepper EST database was designed and constructed to enable comprehensive analysis of chili pepper gene expression in response to biotic and abiotic stresses. Results We built the Pepper EST database to mine the complexity of chili pepper ESTs. The database was built on 122,582 sequenced ESTs and 116,412 refined ESTs from 21 pepper EST libraries. The ESTs were clustered and assembled into virtual consensus cDNAs and the cDNAs were assigned to metabolic pathway, Gene Ontology (GO, and MIPS Functional Catalogue (FunCat. The Pepper EST database is designed to provide a workbench for (i identifying unigenes in pepper plants, (ii analyzing expression patterns in different developmental tissues and under conditions of stress, and (iii comparing the ESTs with those of other members of the Solanaceae family. The Pepper EST database is freely available at http://genepool.kribb.re.kr/pepper/. Conclusion The Pepper EST database is expected to provide a high-quality resource, which will contribute to gaining a systemic understanding of plant diseases and facilitate genetics-based population studies. The database is also expected to contribute to analysis of gene synteny as part of the chili pepper sequencing project by mapping ESTs to the genome.

  15. ECOTOX Knowledgebase: New tools for data visualization and database interoperability (poster)

    Science.gov (United States)

    The ECOTOXicology knowledgebase (ECOTOX) is a comprehensive, curated database that summarizes toxicology data from single chemical exposure studies to terrestrial and aquatic organisms. The ECOTOX Knowledgebase provides risk assessors and researchers consistent information on tox...

  16. TiPs: a database of therapeutic targets in pathogens and associated tools.

    KAUST Repository

    Lepore, Rosalba; Tramontano, Anna; Via, Allegra

    2013-01-01

    has proven successful in several cases. Here, we describe a database that includes information on 5153 putative drug-target pairs for 150 human pathogens derived from available drug-target crystallographic complexes. AVAILABILITY AND IMPLEMENTATION

  17. ARACHNID: A prototype object-oriented database tool for distributed systems

    Science.gov (United States)

    Younger, Herbert; Oreilly, John; Frogner, Bjorn

    1994-01-01

    This paper discusses the results of a Phase 2 SBIR project sponsored by NASA and performed by MIMD Systems, Inc. A major objective of this project was to develop specific concepts for improved performance in accessing large databases. An object-oriented and distributed approach was used for the general design, while a geographical decomposition was used as a specific solution. The resulting software framework is called ARACHNID. The Faint Source Catalog developed by NASA was the initial database testbed. This is a database of many giga-bytes, where an order of magnitude improvement in query speed is being sought. This database contains faint infrared point sources obtained from telescope measurements of the sky. A geographical decomposition of this database is an attractive approach to dividing it into pieces. Each piece can then be searched on individual processors with only a weak data linkage between the processors being required. As a further demonstration of the concepts implemented in ARACHNID, a tourist information system is discussed. This version of ARACHNID is the commercial result of the project. It is a distributed, networked, database application where speed, maintenance, and reliability are important considerations. This paper focuses on the design concepts and technologies that form the basis for ARACHNID.

  18. Application of SIG and OLAP technologies on IBGE databases as a decision support tool for the county administration

    Directory of Open Access Journals (Sweden)

    REGO, E. A.

    2008-06-01

    Full Text Available This paper shows a Decision Support System development for any brazilian county. The system is free of any costs research. For doing so, one uses the datawarehouse, OLAP and GIS technologies all together with the IBGE's database to give to the user a query building tool, showing the results in maps or/and tables format, on a very simple and efficient way.

  19. MetalS(3), a database-mining tool for the identification of structurally similar metal sites.

    Science.gov (United States)

    Valasatava, Yana; Rosato, Antonio; Cavallaro, Gabriele; Andreini, Claudia

    2014-08-01

    We have developed a database search tool to identify metal sites having structural similarity to a query metal site structure within the MetalPDB database of minimal functional sites (MFSs) contained in metal-binding biological macromolecules. MFSs describe the local environment around the metal(s) independently of the larger context of the macromolecular structure. Such a local environment has a determinant role in tuning the chemical reactivity of the metal, ultimately contributing to the functional properties of the whole system. The database search tool, which we called MetalS(3) (Metal Sites Similarity Search), can be accessed through a Web interface at http://metalweb.cerm.unifi.it/tools/metals3/ . MetalS(3) uses a suitably adapted version of an algorithm that we previously developed to systematically compare the structure of the query metal site with each MFS in MetalPDB. For each MFS, the best superposition is kept. All these superpositions are then ranked according to the MetalS(3) scoring function and are presented to the user in tabular form. The user can interact with the output Web page to visualize the structural alignment or the sequence alignment derived from it. Options to filter the results are available. Test calculations show that the MetalS(3) output correlates well with expectations from protein homology considerations. Furthermore, we describe some usage scenarios that highlight the usefulness of MetalS(3) to obtain mechanistic and functional hints regardless of homology.

  20. A Web-based Tool for SDSS and 2MASS Database Searches

    Science.gov (United States)

    Hendrickson, M. A.; Uomoto, A.; Golimowski, D. A.

    We have developed a web site using HTML, Php, Python, and MySQL that extracts, processes, and displays data from the Sloan Digital Sky Survey (SDSS) and the Two-Micron All-Sky Survey (2MASS). The goal is to locate brown dwarf candidates in the SDSS database by looking at color cuts; however, this site could also be useful for targeted searches of other databases as well. MySQL databases are created from broad searches of SDSS and 2MASS data. Broad queries on the SDSS and 2MASS database servers are run weekly so that observers have the most up-to-date information from which to select candidates for observation. Observers can look at detailed information about specific objects including finding charts, images, and available spectra. In addition, updates from previous observations can be added by any collaborators; this format makes observational collaboration simple. Observers can also restrict the database search, just before or during an observing run, to select objects of special interest.

  1. The Current Status of Germplum Database: a Tool for Characterization of Plum Genetic Resources in Romania

    Directory of Open Access Journals (Sweden)

    Monica Harta

    2016-11-01

    Full Text Available In Romania, Prunus genetic resources are kept in collections of varieties, populations and biotypes, mainly located in research and development institutes or fruit growing stations and, in the last years, by some private enterprises. Creating the experimental model for the Germplum database based on phenotypic descriptors and SSR molecular markers analysis is an important and topical objective for the efficient characterization of genetic resources and also for establishing a public-private partnership for the effective management of plum germplasm resources in Romania. The technical development of the Germplum database was completed and data will be added continuously after characterizing each new accession.

  2. TiPs: a database of therapeutic targets in pathogens and associated tools.

    KAUST Repository

    Lepore, Rosalba

    2013-05-21

    MOTIVATION: The need for new drugs and new targets is particularly compelling in an era that is witnessing an alarming increase of drug resistance in human pathogens. The identification of new targets of known drugs is a promising approach, which has proven successful in several cases. Here, we describe a database that includes information on 5153 putative drug-target pairs for 150 human pathogens derived from available drug-target crystallographic complexes. AVAILABILITY AND IMPLEMENTATION: The TiPs database is freely available at http://biocomputing.it/tips. CONTACT: anna.tramontano@uniroma1.it or allegra.via@uniroma1.it.

  3. Development and Exploration of a Regional Stormwater BMP Performance Database to Parameterize an Integrated Decision Support Tool (i-DST)

    Science.gov (United States)

    Bell, C.; Li, Y.; Lopez, E.; Hogue, T. S.

    2017-12-01

    Decision support tools that quantitatively estimate the cost and performance of infrastructure alternatives are valuable for urban planners. Such a tool is needed to aid in planning stormwater projects to meet diverse goals such as the regulation of stormwater runoff and its pollutants, minimization of economic costs, and maximization of environmental and social benefits in the communities served by the infrastructure. This work gives a brief overview of an integrated decision support tool, called i-DST, that is currently being developed to serve this need. This presentation focuses on the development of a default database for the i-DST that parameterizes water quality treatment efficiency of stormwater best management practices (BMPs) by region. Parameterizing the i-DST by region will allow the tool to perform accurate simulations in all parts of the United States. A national dataset of BMP performance is analyzed to determine which of a series of candidate regionalizations explains the most variance in the national dataset. The data used in the regionalization analysis comes from the International Stormwater BMP Database and data gleaned from an ongoing systematic review of peer-reviewed and gray literature. In addition to identifying a regionalization scheme for water quality performance parameters in the i-DST, our review process will also provide example methods and protocols for systematic reviews in the field of Earth Science.

  4. Computational assessment of hemodynamics-based diagnostic tools using a database of virtual subjects: Application to three case studies.

    Science.gov (United States)

    Willemet, Marie; Vennin, Samuel; Alastruey, Jordi

    2016-12-08

    Many physiological indexes and algorithms based on pulse wave analysis have been suggested in order to better assess cardiovascular function. Because these tools are often computed from in-vivo hemodynamic measurements, their validation is time-consuming, challenging, and biased by measurement errors. Recently, a new methodology has been suggested to assess theoretically these computed tools: a database of virtual subjects generated using numerical 1D-0D modeling of arterial hemodynamics. The generated set of simulations encloses a wide selection of healthy cases that could be encountered in a clinical study. We applied this new methodology to three different case studies that demonstrate the potential of our new tool, and illustrated each of them with a clinically relevant example: (i) we assessed the accuracy of indexes estimating pulse wave velocity; (ii) we validated and refined an algorithm that computes central blood pressure; and (iii) we investigated theoretical mechanisms behind the augmentation index. Our database of virtual subjects is a new tool to assist the clinician: it provides insight into the physical mechanisms underlying the correlations observed in clinical practice. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

  5. ePORT, NASA's Computer Database Program for System Safety Risk Management Oversight (Electronic Project Online Risk Tool)

    Science.gov (United States)

    Johnson, Paul W.

    2008-01-01

    ePORT (electronic Project Online Risk Tool) provides a systematic approach to using an electronic database program to manage a program/project risk management processes. This presentation will briefly cover the standard risk management procedures, then thoroughly cover NASA's Risk Management tool called ePORT. This electronic Project Online Risk Tool (ePORT) is a web-based risk management program that provides a common framework to capture and manage risks, independent of a programs/projects size and budget. It is used to thoroughly cover the risk management paradigm providing standardized evaluation criterion for common management reporting, ePORT improves Product Line, Center and Corporate Management insight, simplifies program/project manager reporting, and maintains an archive of data for historical reference.

  6. The web-enabled database of JRC-EC: a useful tool for managing european gen 4 materials data

    International Nuclear Information System (INIS)

    Over, H.H.; Dietz, W.

    2008-01-01

    Materials and document databases are important tools to conserve knowledge and experimental materials data of European R and D projects. A web-enabled application guarantees a fast access to these data. In combination with analysis tools the experimental data are used for e.g. mechanical design, construction and lifetime predictions of complex components. The effective and efficient handling of large amounts of generic and detailed materials data with regard to properties related to e.g. fabrication processes, joining techniques, irradiation or aging is one of the basic elements of data management within ongoing nuclear safety and design related European research projects and networks. The paper describes the structure and functionality of Mat-DB and gives examples how these tools can be used for the management and evaluation of materials data for EURATOM FP7 Generation IV reactor types. (authors)

  7. A plant resource and experiment management system based on the Golm Plant Database as a basic tool for omics research

    Directory of Open Access Journals (Sweden)

    Selbig Joachim

    2008-05-01

    Full Text Available Abstract Background For omics experiments, detailed characterisation of experimental material with respect to its genetic features, its cultivation history and its treatment history is a requirement for analyses by bioinformatics tools and for publication needs. Furthermore, meta-analysis of several experiments in systems biology based approaches make it necessary to store this information in a standardised manner, preferentially in relational databases. In the Golm Plant Database System, we devised a data management system based on a classical Laboratory Information Management System combined with web-based user interfaces for data entry and retrieval to collect this information in an academic environment. Results The database system contains modules representing the genetic features of the germplasm, the experimental conditions and the sampling details. In the germplasm module, genetically identical lines of biological material are generated by defined workflows, starting with the import workflow, followed by further workflows like genetic modification (transformation, vegetative or sexual reproduction. The latter workflows link lines and thus create pedigrees. For experiments, plant objects are generated from plant lines and united in so-called cultures, to which the cultivation conditions are linked. Materials and methods for each cultivation step are stored in a separate ACCESS database of the plant cultivation unit. For all cultures and thus every plant object, each cultivation site and the culture's arrival time at a site are logged by a barcode-scanner based system. Thus, for each plant object, all site-related parameters, e.g. automatically logged climate data, are available. These life history data and genetic information for the plant objects are linked to analytical results by the sampling module, which links sample components to plant object identifiers. This workflow uses controlled vocabulary for organs and treatments. Unique

  8. A database and tool, IM Browser, for exploring and integrating emerging gene and protein interaction data for Drosophila

    Directory of Open Access Journals (Sweden)

    Parrish Jodi R

    2006-04-01

    Full Text Available Abstract Background Biological processes are mediated by networks of interacting genes and proteins. Efforts to map and understand these networks are resulting in the proliferation of interaction data derived from both experimental and computational techniques for a number of organisms. The volume of this data combined with the variety of specific forms it can take has created a need for comprehensive databases that include all of the available data sets, and for exploration tools to facilitate data integration and analysis. One powerful paradigm for the navigation and analysis of interaction data is an interaction graph or map that represents proteins or genes as nodes linked by interactions. Several programs have been developed for graphical representation and analysis of interaction data, yet there remains a need for alternative programs that can provide casual users with rapid easy access to many existing and emerging data sets. Description Here we describe a comprehensive database of Drosophila gene and protein interactions collected from a variety of sources, including low and high throughput screens, genetic interactions, and computational predictions. We also present a program for exploring multiple interaction data sets and for combining data from different sources. The program, referred to as the Interaction Map (IM Browser, is a web-based application for searching and visualizing interaction data stored in a relational database system. Use of the application requires no downloads and minimal user configuration or training, thereby enabling rapid initial access to interaction data. IM Browser was designed to readily accommodate and integrate new types of interaction data as it becomes available. Moreover, all information associated with interaction measurements or predictions and the genes or proteins involved are accessible to the user. This allows combined searches and analyses based on either common or technique-specific attributes

  9. Supervised learning of tools for content-based search of image databases

    Science.gov (United States)

    Delanoy, Richard L.

    1996-03-01

    A computer environment, called the Toolkit for Image Mining (TIM), is being developed with the goal of enabling users with diverse interests and varied computer skills to create search tools for content-based image retrieval and other pattern matching tasks. Search tools are generated using a simple paradigm of supervised learning that is based on the user pointing at mistakes of classification made by the current search tool. As mistakes are identified, a learning algorithm uses the identified mistakes to build up a model of the user's intentions, construct a new search tool, apply the search tool to a test image, display the match results as feedback to the user, and accept new inputs from the user. Search tools are constructed in the form of functional templates, which are generalized matched filters capable of knowledge- based image processing. The ability of this system to learn the user's intentions from experience contrasts with other existing approaches to content-based image retrieval that base searches on the characteristics of a single input example or on a predefined and semantically- constrained textual query. Currently, TIM is capable of learning spectral and textural patterns, but should be adaptable to the learning of shapes, as well. Possible applications of TIM include not only content-based image retrieval, but also quantitative image analysis, the generation of metadata for annotating images, data prioritization or data reduction in bandwidth-limited situations, and the construction of components for larger, more complex computer vision algorithms.

  10. Database with web interface and search engine as a diagnostics tool for electromagnetic calorimeter

    CERN Document Server

    Paluoja, Priit

    2017-01-01

    During 2016 data collection, the Compact Muon Solenoid Data Acquisition (CMS DAQ) system has shown a very good reliability. Nevertheless, the high complexity of the hardware and the software involved is, by its nature, prone to some occasional problems. As CMS subdetector, electromagnetic calorimeter (ECAL) is affected in the same way. Some of the issues are not predictable and can appear during the year more than once such as components getting noisy, power shortcuts or failing communication between machines. The chain detection-diagnosis-intervention must be as fast as possible to minimise the downtime of the detector. The aim of this project was to create a diagnostic software for ECAL crew, which consists of database and its web interface that allows to search, add and edit the contents of the database.

  11. Genealogical databases as a tool for extending follow-up in clinical reviews.

    Science.gov (United States)

    Ho, Thuy-Van; Chowdhury, Naweed; Kandl, Christopher; Hoover, Cindy; Robinson, Ann; Hoover, Larry

    2016-08-01

    Long-term follow-up in clinical reviews often presents significant difficulty with conventional medical records alone. Publicly accessible genealogical databases such as Ancestry.com provide another avenue for obtaining extended follow-up and added outcome information. No previous studies have described the use of genealogical databases in the follow-up of individual patients. Ancestry.com, the largest genealogical database in the United States, houses extensive demographic data on an increasing number of Americans. In a recent retrospective review of esthesioneuroblastoma patients treated at our institution, we used this resource to ascertain the outcomes of patients otherwise lost to follow-up. Additional information such as quality of life and supplemental treatments the patient may have received at home was obtained through direct contact with living relatives. The use of Ancestry.com resulted in a 25% increase (20 months) in follow-up duration as well as incorporation of an additional 7 patients in our study (18%) who would otherwise not have had adequate hospital chart data for inclusion. Many patients within this subset had more advanced disease or were remotely located from our institution. As such, exclusion of these outliers can impact the quality of subsequent outcome analysis. Online genealogical databases provide a unique resource of public information that is acceptable to institutional review boards for patient follow-up in clinical reviews. Utilization of Ancestry.com data led to significant improvement in follow-up duration and increased the number of patients with sufficient data that could be included in our retrospective study. © 2016 ARS-AAOA, LLC.

  12. 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.

  13. 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.

  14. ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining.

    Science.gov (United States)

    Huan, Tianxiao; Sivachenko, Andrey Y; Harrison, Scott H; Chen, Jake Y

    2008-08-12

    New systems biology studies require researchers to understand how interplay among myriads of biomolecular entities is orchestrated in order to achieve high-level cellular and physiological functions. Many software tools have been developed in the past decade to help researchers visually navigate large networks of biomolecular interactions with built-in template-based query capabilities. To further advance researchers' ability to interrogate global physiological states of cells through multi-scale visual network explorations, new visualization software tools still need to be developed to empower the analysis. A robust visual data analysis platform driven by database management systems to perform bi-directional data processing-to-visualizations with declarative querying capabilities is needed. We developed ProteoLens as a JAVA-based visual analytic software tool for creating, annotating and exploring multi-scale biological networks. It supports direct database connectivity to either Oracle or PostgreSQL database tables/views, on which SQL statements using both Data Definition Languages (DDL) and Data Manipulation languages (DML) may be specified. The robust query languages embedded directly within the visualization software help users to bring their network data into a visualization context for annotation and exploration. ProteoLens supports graph/network represented data in standard Graph Modeling Language (GML) formats, and this enables interoperation with a wide range of other visual layout tools. The architectural design of ProteoLens enables the de-coupling of complex network data visualization tasks into two distinct phases: 1) creating network data association rules, which are mapping rules between network node IDs or edge IDs and data attributes such as functional annotations, expression levels, scores, synonyms, descriptions etc; 2) applying network data association rules to build the network and perform the visual annotation of graph nodes and edges

  15. Metadata Dictionary Database: A Proposed Tool for Academic Library Metadata Management

    Science.gov (United States)

    Southwick, Silvia B.; Lampert, Cory

    2011-01-01

    This article proposes a metadata dictionary (MDD) be used as a tool for metadata management. The MDD is a repository of critical data necessary for managing metadata to create "shareable" digital collections. An operational definition of metadata management is provided. The authors explore activities involved in metadata management in…

  16. The Fluka Linebuilder and Element Database: Tools for Building Complex Models of Accelerators Beam Lines

    CERN Document Server

    Mereghetti, A; Cerutti, F; Versaci, R; Vlachoudis, V

    2012-01-01

    Extended FLUKA models of accelerator beam lines can be extremely complex: heavy to manipulate, poorly versatile and prone to mismatched positioning. We developed a framework capable of creating the FLUKA model of an arbitrary portion of a given accelerator, starting from the optics configuration and a few other information provided by the user. The framework includes a builder (LineBuilder), an element database and a series of configuration and analysis scripts. The LineBuilder is a Python program aimed at dynamically assembling complex FLUKA models of accelerator beam lines: positions, magnetic fields and scorings are automatically set up, and geometry details such as apertures of collimators, tilting and misalignment of elements, beam pipes and tunnel geometries can be entered at user’s will. The element database (FEDB) is a collection of detailed FLUKA geometry models of machine elements. This framework has been widely used for recent LHC and SPS beam-machine interaction studies at CERN, and led to a dra...

  17. The New Zealand Food Composition Database: A useful tool for assessing New Zealanders' nutrient intake.

    Science.gov (United States)

    Sivakumaran, Subathira; Huffman, Lee; Sivakumaran, Sivalingam

    2018-01-01

    A country-specific food composition databases is useful for assessing nutrient intake reliably in national nutrition surveys, research studies and clinical practice. The New Zealand Food Composition Database (NZFCDB) programme seeks to maintain relevant and up-to-date food records that reflect the composition of foods commonly consumed in New Zealand following Food Agricultural Organisation of the United Nations/International Network of Food Data Systems (FAO/INFOODS) guidelines. Food composition data (FCD) of up to 87 core components for approximately 600 foods have been added to NZFCDB since 2010. These foods include those identified as providing key nutrients in a 2008/09 New Zealand Adult Nutrition Survey. Nutrient data obtained by analysis of composite samples or are calculated from analytical data. Currently >2500 foods in 22 food groups are freely available in various NZFCDB output products on the website: www.foodcomposition.co.nz. NZFCDB is the main source of FCD for estimating nutrient intake in New Zealand nutrition surveys. Copyright © 2016 Elsevier Ltd. All rights reserved.

  18. The braingraph.org database of high resolution structural connectomes and the brain graph tools.

    Science.gov (United States)

    Kerepesi, Csaba; Szalkai, Balázs; Varga, Bálint; Grolmusz, Vince

    2017-10-01

    Based on the data of the NIH-funded Human Connectome Project, we have computed structural connectomes of 426 human subjects in five different resolutions of 83, 129, 234, 463 and 1015 nodes and several edge weights. The graphs are given in anatomically annotated GraphML format that facilitates better further processing and visualization. For 96 subjects, the anatomically classified sub-graphs can also be accessed, formed from the vertices corresponding to distinct lobes or even smaller regions of interests of the brain. For example, one can easily download and study the connectomes, restricted to the frontal lobes or just to the left precuneus of 96 subjects using the data. Partially directed connectomes of 423 subjects are also available for download. We also present a GitHub-deposited set of tools, called the Brain Graph Tools, for several processing tasks of the connectomes on the site http://braingraph.org.

  19. Automating testbed documentation and database access using World Wide Web (WWW) tools

    Science.gov (United States)

    Ames, Charles; Auernheimer, Brent; Lee, Young H.

    1994-01-01

    A method for providing uniform transparent access to disparate distributed information systems was demonstrated. A prototype testing interface was developed to access documentation and information using publicly available hypermedia tools. The prototype gives testers a uniform, platform-independent user interface to on-line documentation, user manuals, and mission-specific test and operations data. Mosaic was the common user interface, and HTML (Hypertext Markup Language) provided hypertext capability.

  20. Building, running and dismantling the world's largest scientific instrument with the same database tools

    CERN Document Server

    Billen, R; CERN. Geneva. SPS and LHC Division

    2001-01-01

    Many people have heard of CERN, the European Organisation for Nuclear Research, and its enormous scientific masterpiece LEP, the Large Electron Positron collider. This is a 27-kilometer long particle accelerator designed to peek deeply inside the structure of matter in the framework of fundamental research. Despite the millions of Internet users, few of them know that the World Wide Web was invented at CERN in 1989, the same year that LEP was commissioned. Even fewer people know that CERN was among the first European organisations to have purchased the Oracle RDBMS back in 1983 and effectively put it in use for mission critical data management applications. Since that date, Oracle databases have been used extensively at CERN and in particular for technical and scientific data. This paper gives an overview of the use of Oracle throughout the lifecycle of CERN's flagship: the construction, exploitation and dismantling of LEP.

  1. CheD: chemical database compilation tool, Internet server, and client for SQL servers.

    Science.gov (United States)

    Trepalin, S V; Yarkov, A V

    2001-01-01

    An efficient program, which runs on a personal computer, for the storage, retrieval, and processing of chemical information, is presented, The program can work both as a stand-alone application or in conjunction with a specifically written Web server application or with some standard SQL servers, e.g., Oracle, Interbase, and MS SQL. New types of data fields are introduced, e.g., arrays for spectral information storage, HTML and database links, and user-defined functions. CheD has an open architecture; thus, custom data types, controls, and services may be added. A WWW server application for chemical data retrieval features an easy and user-friendly installation on Windows NT or 95 platforms.

  2. PROCARB: A Database of Known and Modelled Carbohydrate-Binding Protein Structures with Sequence-Based Prediction Tools

    Directory of Open Access Journals (Sweden)

    Adeel Malik

    2010-01-01

    Full Text Available Understanding of the three-dimensional structures of proteins that interact with carbohydrates covalently (glycoproteins as well as noncovalently (protein-carbohydrate complexes is essential to many biological processes and plays a significant role in normal and disease-associated functions. It is important to have a central repository of knowledge available about these protein-carbohydrate complexes as well as preprocessed data of predicted structures. This can be significantly enhanced by tools de novo which can predict carbohydrate-binding sites for proteins in the absence of structure of experimentally known binding site. PROCARB is an open-access database comprising three independently working components, namely, (i Core PROCARB module, consisting of three-dimensional structures of protein-carbohydrate complexes taken from Protein Data Bank (PDB, (ii Homology Models module, consisting of manually developed three-dimensional models of N-linked and O-linked glycoproteins of unknown three-dimensional structure, and (iii CBS-Pred prediction module, consisting of web servers to predict carbohydrate-binding sites using single sequence or server-generated PSSM. Several precomputed structural and functional properties of complexes are also included in the database for quick analysis. In particular, information about function, secondary structure, solvent accessibility, hydrogen bonds and literature reference, and so forth, is included. In addition, each protein in the database is mapped to Uniprot, Pfam, PDB, and so forth.

  3. Pictorial materials database: 1200 combinations of pigments, dyes, binders and varnishes designed as a tool for heritage science and conservation

    Science.gov (United States)

    Cavaleri, Tiziana; Buscaglia, Paola; Migliorini, Simonetta; Nervo, Marco; Piccablotto, Gabriele; Piccirillo, Anna; Pisani, Marco; Puglisi, Davide; Vaudan, Dario; Zucco, Massimo

    2017-06-01

    The conservation of artworks requires a profound knowledge about pictorial materials, their chemical and physical properties and their interaction and/or degradation processes. For this reason, pictorial materials databases are widely used to study and investigate cultural heritage. At Centre for Conservation and Restoration La Venaria Reale, we prepared a set of about 1200 mock-ups with 173 different pigments and/or dyes, used across all the historical times or as products for conservation, four binders, two varnishes and four different materials for underdrawings. In collaboration with the Laboratorio Analisi Scientifiche of Regione Autonoma Valle d'Aosta, the National Institute of Metrological Research and the Department of Architecture and Design of the Polytechnic of Turin, we created a scientific database that is now available online (http://www.centrorestaurovenaria.it/en/areas/diagnostic/pictorial-materials-database) designed as a tool for heritage science and conservation. Here, we present a focus on materials for pictorial retouching where the hyperspectral imaging application, conducted with a prototype of new technology, allowed to provide a list of pigments that could be more suitable for conservation treatments and pictorial retouching. Then we present the case study of the industrial painting Notte Barbara (1962) by Pinot Gallizio where the use of the database including modern and contemporary art materials showed to be very useful and where the fibre optics reflectance spectroscopy technique was decisive for pigment identification purpose. Later in this research, the mock-ups will be exploited to study degradation processes, e.g., the lightfastness, or the possible formation of interaction products, e.g., metal carboxylates.

  4. The French post irradiation examination database for the validation of depletion calculation tools

    International Nuclear Information System (INIS)

    Roque, Benedicte; Marimbeau, Pierre; Bioux, Philippe; Toubon, Herve; Daudin, Lucien

    2003-01-01

    This paper presents the experimental programmes conducted in France by the Commissariat a l'Energie Atomique (CEA) in order to validate spent fuel inventory calculations for core studies as well as fuel cycle studies. This large experimental programme was obtained in collaboration with our French partners, Electricite de France (EDF), FRAMATOME-ANP and COGEMA. The experimental data are based on chemical analysis measurements from fuel rod cuts irradiated in French reactors for PWR-UOx and MOx fuels, then dissolved in CEA laboratories, and from full assembly dissolutions at the COGEMA/La Hague reprocessing plants for UOx fuels. This enables us to cover a large range of UOx fuels with various enrichments in 235 U, 3.1% to 4.5%, associated with burnups from 10 GWd/t to 60 GWd/t. Recently, MOx fuels have also been investigated, with an initial Pu amount in the central zone of 5.6% and a maximum burnup of 45 GWd/t. Uranium, Plutonium, Americium, Curium isotopes and some fission products were analysed. Furthermore, Fission Products involved in Burn up Credit studies were measured. The experimental database contains also data for Boiling Water Reactor (BWR) with irradiated samples of BWR 9x9 and full BWR assemblies dissolutions. Furthermore some data exist for Fast Breeder Reactor (FBR) with small samples irradiated in the PHENIX reactor. An overview of ongoing programmes is also presented. (author)

  5. Human transporter database: comprehensive knowledge and discovery tools in the human transporter genes.

    Directory of Open Access Journals (Sweden)

    Adam Y Ye

    Full Text Available Transporters are essential in homeostatic exchange of endogenous and exogenous substances at the systematic, organic, cellular, and subcellular levels. Gene mutations of transporters are often related to pharmacogenetics traits. Recent developments in high throughput technologies on genomics, transcriptomics and proteomics allow in depth studies of transporter genes in normal cellular processes and diverse disease conditions. The flood of high throughput data have resulted in urgent need for an updated knowledgebase with curated, organized, and annotated human transporters in an easily accessible way. Using a pipeline with the combination of automated keywords query, sequence similarity search and manual curation on transporters, we collected 1,555 human non-redundant transporter genes to develop the Human Transporter Database (HTD (http://htd.cbi.pku.edu.cn. Based on the extensive annotations, global properties of the transporter genes were illustrated, such as expression patterns and polymorphisms in relationships with their ligands. We noted that the human transporters were enriched in many fundamental biological processes such as oxidative phosphorylation and cardiac muscle contraction, and significantly associated with Mendelian and complex diseases such as epilepsy and sudden infant death syndrome. Overall, HTD provides a well-organized interface to facilitate research communities to search detailed molecular and genetic information of transporters for development of personalized medicine.

  6. ArrayExpress update--trends in database growth and links to data analysis tools.

    Science.gov (United States)

    Rustici, Gabriella; Kolesnikov, Nikolay; Brandizi, Marco; Burdett, Tony; Dylag, Miroslaw; Emam, Ibrahim; Farne, Anna; Hastings, Emma; Ison, Jon; Keays, Maria; Kurbatova, Natalja; Malone, James; Mani, Roby; Mupo, Annalisa; Pedro Pereira, Rui; Pilicheva, Ekaterina; Rung, Johan; Sharma, Anjan; Tang, Y Amy; Ternent, Tobias; Tikhonov, Andrew; Welter, Danielle; Williams, Eleanor; Brazma, Alvis; Parkinson, Helen; Sarkans, Ugis

    2013-01-01

    The ArrayExpress Archive of Functional Genomics Data (http://www.ebi.ac.uk/arrayexpress) is one of three international functional genomics public data repositories, alongside the Gene Expression Omnibus at NCBI and the DDBJ Omics Archive, supporting peer-reviewed publications. It accepts data generated by sequencing or array-based technologies and currently contains data from almost a million assays, from over 30 000 experiments. The proportion of sequencing-based submissions has grown significantly over the last 2 years and has reached, in 2012, 15% of all new data. All data are available from ArrayExpress in MAGE-TAB format, which allows robust linking to data analysis and visualization tools, including Bioconductor and GenomeSpace. Additionally, R objects, for microarray data, and binary alignment format files, for sequencing data, have been generated for a significant proportion of ArrayExpress data.

  7. Version 1.00 programmer's tools used in constructing the INEL RML/analytical radiochemistry sample tracking database and its user interface

    International Nuclear Information System (INIS)

    Femec, D.A.

    1995-09-01

    This report describes two code-generating tools used to speed design and implementation of relational databases and user interfaces: CREATE-SCHEMA and BUILD-SCREEN. CREATE-SCHEMA produces the SQL commands that actually create and define the database. BUILD-SCREEN takes templates for data entry screens and generates the screen management system routine calls to display the desired screen. Both tools also generate the related FORTRAN declaration statements and precompiled SQL calls. Included with this report is the source code for a number of FORTRAN routines and functions used by the user interface. This code is broadly applicable to a number of different databases

  8. The web-enabled database of JRC-EC, a useful tool for managing European Gen IV materials data

    International Nuclear Information System (INIS)

    Over, H.H.; Dietz, W.

    2008-01-01

    Materials and document databases are important tools to conserve knowledge and experimental materials data of European R and D projects. A web-enabled application guarantees a fast access to these data. In combination with analysis tools the experimental data are used for e.g. mechanical design, construction and lifetime predictions of complex components. The effective and efficient handling of large amounts of generic and detailed materials data with regard to properties related to e.g. fabrication processes, joining techniques, irradiation or aging is one of the basic elements of data management within ongoing nuclear safety and design related European research projects and networks. The paper describes the structure and functionality of Mat-DB and gives examples how these tools can be used for the management and evaluation of materials data of European (national or multi-national) R and D activities or future reactor types such as the EURATOM FP7 Generation IV reactor types or the heavy liquid metals cooled reactor

  9. Special issue on enabling open and interoperable access to Planetary Science and Heliophysics databases and tools

    Science.gov (United States)

    2018-01-01

    The large amount of data generated by modern space missions calls for a change of organization of data distribution and access procedures. Although long term archives exist for telescopic and space-borne observations, high-level functions need to be developed on top of these repositories to make Planetary Science and Heliophysics data more accessible and to favor interoperability. Results of simulations and reference laboratory data also need to be integrated to support and interpret the observations. Interoperable software and interfaces have recently been developed in many scientific domains. The Virtual Observatory (VO) interoperable standards developed for Astronomy by the International Virtual Observatory Alliance (IVOA) can be adapted to Planetary Sciences, as demonstrated by the VESPA (Virtual European Solar and Planetary Access) team within the Europlanet-H2020-RI project. Other communities have developed their own standards: GIS (Geographic Information System) for Earth and planetary surfaces tools, SPASE (Space Physics Archive Search and Extract) for space plasma, PDS4 (NASA Planetary Data System, version 4) and IPDA (International Planetary Data Alliance) for planetary mission archives, etc, and an effort to make them interoperable altogether is starting, including automated workflows to process related data from different sources.

  10. [The National Database of the Regional Collaborative Rheumatic Centers as a tool for clinical epidemiology and quality assessment in rheumatology].

    Science.gov (United States)

    Zink, Angela; Huscher, Dörte; Listing, Joachim

    2003-01-01

    The national database of the German Collaborative Arthritis Centres is a well-established tool for the observation and assessment of health care delivery to patients with rheumatic diseases in Germany. The discussion of variations in treatment practices contributes to the internal quality assessment in the participating arthritis centres. This documentation has shown deficits in primary health care including late referral to a rheumatologist, undertreatment with disease-modifying drugs and complementary therapies. In rheumatology, there is a trend towards early, intensive medical treatment including combination therapy. The frequency and length of inpatient hospital and rehabilitation treatments is decreasing, while active physiotherapy in outpatient care has been increased. Specific deficits have been identified concerning the provision of occupational therapy services and patient education.

  11. 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.

  12. The curation paradigm and application tool used for manual curation of the scientific literature at the Comparative Toxicogenomics Database

    Science.gov (United States)

    Davis, Allan Peter; Wiegers, Thomas C.; Murphy, Cynthia G.; Mattingly, Carolyn J.

    2011-01-01

    The Comparative Toxicogenomics Database (CTD) is a public resource that promotes understanding about the effects of environmental chemicals on human health. CTD biocurators read the scientific literature and convert free-text information into a structured format using official nomenclature, integrating third party controlled vocabularies for chemicals, genes, diseases and organisms, and a novel controlled vocabulary for molecular interactions. Manual curation produces a robust, richly annotated dataset of highly accurate and detailed information. Currently, CTD describes over 349 000 molecular interactions between 6800 chemicals, 20 900 genes (for 330 organisms) and 4300 diseases that have been manually curated from over 25 400 peer-reviewed articles. This manually curated data are further integrated with other third party data (e.g. Gene Ontology, KEGG and Reactome annotations) to generate a wealth of toxicogenomic relationships. Here, we describe our approach to manual curation that uses a powerful and efficient paradigm involving mnemonic codes. This strategy allows biocurators to quickly capture detailed information from articles by generating simple statements using codes to represent the relationships between data types. The paradigm is versatile, expandable, and able to accommodate new data challenges that arise. We have incorporated this strategy into a web-based curation tool to further increase efficiency and productivity, implement quality control in real-time and accommodate biocurators working remotely. Database URL: http://ctd.mdibl.org PMID:21933848

  13. Research Electronic Data Capture (REDCap®) used as an audit tool with a built-in database.

    Science.gov (United States)

    Kragelund, Signe H; Kjærsgaard, Mona; Jensen-Fangel, Søren; Leth, Rita A; Ank, Nina

    2018-05-01

    The aim of this study was to develop an audit tool with a built-in database using Research Electronic Data Capture (REDCap®) as part of an antimicrobial stewardship program at a regional hospital in the Central Denmark Region, and to analyse the need, if any, to involve more than one expert in the evaluation of cases of antimicrobial treatment, and the level of agreement among the experts. Patients treated with systemic antimicrobials in the period from 1 September 2015 to 31 August 2016 were included, in total 722 cases. Data were collected retrospectively and entered manually. The audit was based on seven flow charts regarding: (1) initiation of antimicrobial treatment (2) infection (3) prescription and administration of antimicrobials (4) discontinuation of antimicrobials (5) reassessment within 48 h after the first prescription of antimicrobials (6) microbiological sampling in the period between suspicion of infection and the first administration of antimicrobials (7) microbiological results. The audit was based on automatic calculations drawing on the entered data and on expert assessments. Initially, two experts completed the audit, and in the cases in which they disagreed, a third expert was consulted. In 31.9% of the cases, the two experts agreed on all elements of the audit. In 66.2%, the two experts reached agreement by discussing the cases. Finally, 1.9% of the cases were completed in cooperation with a third expert. The experts assessed 3406 flow charts of which they agreed on 75.8%. We succeeded in creating an audit tool with a built-in database that facilitates independent expert evaluation using REDCap. We found a large inter-observer difference that needs to be considered when constructing a project based on expert judgements. Our two experts agreed on most of the flow charts after discussion, whereas the third expert's intervention did not have any influence on the overall assessment. Copyright © 2018 Elsevier Inc. All rights reserved.

  14. The Chemical Aquatic Fate and Effects database (CAFE), a tool that supports assessments of chemical spills in aquatic environments.

    Science.gov (United States)

    Bejarano, Adriana C; Farr, James K; Jenne, Polly; Chu, Valerie; Hielscher, Al

    2016-06-01

    The Chemical Aquatic Fate and Effects (CAFE) database is a centralized repository that allows for rapid and unrestricted access to data. Information in CAFE is integrated into a user-friendly tool with modules containing fate and effects data for 32 377 and 4498 chemicals, respectively. Toxicity data are summarized in the form of species sensitivity distributions (SSDs) with associated 1st and 5th percentile hazard concentrations (HCs). An assessment of data availability relative to reported chemical incidents showed that CAFE had fate and toxicity data for 32 and 20 chemicals, respectively, of 55 chemicals reported in the US National Response Center database (2000-2014), and fate and toxicity data for 86 and 103, respectively, of 205 chemicals reported by the National Oceanic and Atmospheric Administration (2003-2014). Modeled environmental concentrations of 2 hypothetical spills (acrylonitrile, 625 barrels; and denatured ethanol, 857 barrels) were used to demonstrate CAFE's practical application. Most species in the 24-h SSD could be potentially impacted by acrylonitrile and denatured ethanol during the first 35 min and 15 h post spill, respectively, with concentrations falling below their HC5s (17 mg/L and 2676 mg/L) at 45 min and 60 h post spill, respectively. Comparisons of CAFE-based versus published HC5 values for 100 chemicals showed that nearly half of values were within a 2-fold difference, with a relatively small number of comparisons exceeding a 10-fold difference. The development of CAFE facilitates access to relevant environmental information, with potential uses likely expanding beyond those related to assessment of spills in aquatic environments. Environ Toxicol Chem 2016;35:1576-1586. © 2015 SETAC. © 2015 SETAC.

  15. Bioinformatics tools and database resources for systems genetics analysis in mice-a short review and an evaluation of future needs

    NARCIS (Netherlands)

    Durrant, Caroline; Swertz, Morris A.; Alberts, Rudi; Arends, Danny; Moeller, Steffen; Mott, Richard; Prins, Pjotr; van der Velde, K. Joeri; Jansen, Ritsert C.; Schughart, Klaus

    During a meeting of the SYSGENET working group 'Bioinformatics', currently available software tools and databases for systems genetics in mice were reviewed and the needs for future developments discussed. The group evaluated interoperability and performed initial feasibility studies. To aid future

  16. Bioinformatics tools and database resources for systems genetics analysis in miceça short review and an evaluation of future needs

    NARCIS (Netherlands)

    Durrant, M.C.; Swertz, M.A.; Alberts, R.; Arends, D.; Möller, S.; Mott, R.; Prins, J.C.P.; Velde, van der K.J.; Jansen, R.C.; Schughart, K.

    2012-01-01

    During a meeting of the SYSGENET working group ‘Bioinformatics’, currently available software tools and databases for systems genetics in mice were reviewed and the needs for future developments discussed. The group evaluated interoperability and performed initial feasibility studies. To aid future

  17. Web-based tools for data analysis and quality assurance on a life-history trait database of plants of Northwest Europe

    NARCIS (Netherlands)

    Stadler, Michael; Ahlers, Dirk; Bekker, Rene M.; Finke, Jens; Kunzmann, Dierk; Sonnenschein, Michael

    2006-01-01

    Most data mining techniques have rarely been used in ecology. To address the specific needs of scientists analysing data from a plant trait database developed during the LEDA project, a web-based data mining tool has been developed. This paper presents the DIONE data miner and the project it has

  18. The International Database of Efficient Appliances (IDEA): A new tool to support appliance energy-efficiency deployment

    International Nuclear Information System (INIS)

    Gerke, Brian F.; McNeil, Michael A.; Tu, Thomas

    2017-01-01

    Highlights: •IDEA collects, organizes, and stores data on appliance features and efficiency. •Data can be gathered for any appliance type on any international market. •IDEA enables new approaches to efficiency deployment and monitoring. •Techniques are developed for cross-market comparison of energy-savings potential. •We find significant cost-effective energy-savings potential from efficiency for Indian and Chinese refrigerators. -- Abstract: Appliance energy-efficiency programs are a central component of many countries’ energy-policy portfolios. A major barrier to optimal implementation of these programs is lack of data to determine market baselines, assess the potential for cost-effective energy savings, and track markets over time to evaluate and verify program impacts. To address this gap, we have developed the International Database of Efficient Appliances (IDEA), a suite of software tools that automatically gathers data that is currently dispersed across various online sources and compiles it into a unified repository of information on efficiency, price, and features for a diversity of appliances and devices in markets around the world. In this article we describe the framework and functionality of IDEA, and we demonstrate its power as a resource for research and policy development related to appliance energy efficiency. Using IDEA data for refrigerators in China and India, we assess the potential for cost-effective energy savings within each market by computing robust indicators that can also be easily compared across different appliances and markets. We find that significant cost-effective savings are available on both markets. We discuss implications for the development of future energy-efficiency deployment programs.

  19. GRAFLAB 2.3 for UNIX - A MATLAB database, plotting, and analysis tool: User`s guide

    Energy Technology Data Exchange (ETDEWEB)

    Dunn, W.N.

    1998-03-01

    This report is a user`s manual for GRAFLAB, which is a new database, analysis, and plotting package that has been written entirely in the MATLAB programming language. GRAFLAB is currently used for data reduction, analysis, and archival. GRAFLAB was written to replace GRAFAID, which is a FORTRAN database, analysis, and plotting package that runs on VAX/VMS.

  20. Progress on statistical learning systems as data mining tools for the creation of automatic databases in Fusion environments

    International Nuclear Information System (INIS)

    Vega, J.; Murari, A.; Ratta, G.A.; Gonzalez, S.; Dormido-Canto, S.

    2010-01-01

    Nowadays, processing all information of a fusion database is a much more important issue than acquiring more data. Although typically fusion devices produce tens of thousands of discharges, specialized databases for physics studies are normally limited to a few tens of shots. This is due to the fact that these databases are almost always generated manually, which is a very time consuming and unreliable activity. The development of automatic methods to create specialized databases ensures first, the reduction of human efforts to identify and locate physical events, second, the standardization of criteria (reducing the vulnerability to human errors) and, third, the improvement of statistical relevance. Classification and regression techniques have been used for these purposes. The objective has been the automatic recognition of physical events (that can appear in a random and/or infrequent way) in waveforms and video-movies. Results are shown for the JET database.

  1. The Arabidopsis co-expression tool (act): a WWW-based tool and database for microarray-based gene expression analysis

    DEFF Research Database (Denmark)

    Jen, C. H.; Manfield, I. W.; Michalopoulos, D. W.

    2006-01-01

    be examined using the novel clique finder tool to determine the sets of genes most likely to be regulated in a similar manner. In combination, these tools offer three levels of analysis: creation of correlation lists of co-expressed genes, refinement of these lists using two-dimensional scatter plots......We present a new WWW-based tool for plant gene analysis, the Arabidopsis Co-Expression Tool (act) , based on a large Arabidopsis thaliana microarray data set obtained from the Nottingham Arabidopsis Stock Centre. The co-expression analysis tool allows users to identify genes whose expression...

  2. IDEAS international contamination database: a compilation of published internal contamination cases. A tool for the internal dosimetry community

    International Nuclear Information System (INIS)

    Hurtgen, C.

    2007-01-01

    The aim of the IDEAS project was to develop General Guidelines for the Assessment of Internal Dose from Monitoring Data. The project was divided into 5 Work Packages for the major tasks. Work Package 1 entitled Collection of incorporation cases was devoted to the collection of data by means of bibliographic research (survey of the open literature), contacting and collecting data from specific organisations and using information from existing databases on incorporation cases. To ensure that the guidelines would be applicable to a wide range of practical situations, a database of cases of internal contamination including monitoring data suitable for dose assessment was compiled. The IDEAS Bibliography database and the IDEAS Internal Contamination database were prepared and some reference cases were selected for use in Work Package 3. The other Work packages of the IDEAS Project (WP-2 Preparation of evaluation software, WP-3 Evaluation of incorporation cases, WP-4 Development of the general guidelines and WP-5 Practical testing of general guidelines) have been described in detail elsewhere and can be found on the IDEAS website. A search for reference from the open literature, which contained information on cases of internal contamination from which intake and committed doses could be assessed, has been compiled into a database. The IDEAS Bibliography Database includes references to papers which might (but were not certain to) contain such information, or which included references to papers which contained such information. This database contains the usual bibliographical information: authors' name(s), year of publication, title of publication and the journal or report number. Up to now, a comprehensive Bibliography Database containing 563 references has been compiled. Not surprisingly more than half of the references are from Health Physics and Radiation Protection Dosimetry Journals.The next step was for the partners of the IDEAS project to obtain the references

  3. 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

  4. DMPD: Ubiquitin: tool and target for intracellular NF-kappaB inhibitors. [Dynamic Macrophage Pathway CSML Database

    Lifescience Database Archive (English)

    Full Text Available 16982211 Ubiquitin: tool and target for intracellular NF-kappaB inhibitors. Wullaer...vg) (.html) (.csml) Show Ubiquitin: tool and target for intracellular NF-kappaB inhibitors. PubmedID 1698221...1 Title Ubiquitin: tool and target for intracellular NF-kappaB inhibitors. Author

  5. THE NASA AMES PAH IR SPECTROSCOPIC DATABASE VERSION 2.00: UPDATED CONTENT, WEB SITE, AND ON(OFF)LINE TOOLS

    Energy Technology Data Exchange (ETDEWEB)

    Boersma, C.; Mattioda, A. L.; Allamandola, L. J. [NASA Ames Research Center, MS 245-6, Moffett Field, CA 94035 (United States); Bauschlicher, C. W. Jr.; Ricca, A. [NASA Ames Research Center, MS 230-3, Moffett Field, CA 94035 (United States); Cami, J.; Peeters, E.; De Armas, F. Sánchez; Saborido, G. Puerta [SETI Institute, 189 Bernardo Avenue 100, Mountain View, CA 94043 (United States); Hudgins, D. M., E-mail: Christiaan.Boersma@nasa.gov [NASA Headquarters, MS 3Y28, 300 E St. SW, Washington, DC 20546 (United States)

    2014-03-01

    A significantly updated version of the NASA Ames PAH IR Spectroscopic Database, the first major revision since its release in 2010, is presented. The current version, version 2.00, contains 700 computational and 75 experimental spectra compared, respectively, with 583 and 60 in the initial release. The spectra span the 2.5-4000 μm (4000-2.5 cm{sup -1}) range. New tools are available on the site that allow one to analyze spectra in the database and compare them with imported astronomical spectra as well as a suite of IDL object classes (a collection of programs utilizing IDL's object-oriented programming capabilities) that permit offline analysis called the AmesPAHdbIDLSuite. Most noteworthy among the additions are the extension of the computational spectroscopic database to include a number of significantly larger polycyclic aromatic hydrocarbons (PAHs), the ability to visualize the molecular atomic motions corresponding to each vibrational mode, and a new tool that allows one to perform a non-negative least-squares fit of an imported astronomical spectrum with PAH spectra in the computational database. Finally, a methodology is described in the Appendix, and implemented using the AmesPAHdbIDLSuite, that allows the user to enforce charge balance during the fitting procedure.

  6. CANGS DB: a stand-alone web-based database tool for processing, managing and analyzing 454 data in biodiversity studies

    Directory of Open Access Journals (Sweden)

    Schlötterer Christian

    2011-06-01

    Full Text Available Abstract Background Next generation sequencing (NGS is widely used in metagenomic and transcriptomic analyses in biodiversity. The ease of data generation provided by NGS platforms has allowed researchers to perform these analyses on their particular study systems. In particular the 454 platform has become the preferred choice for PCR amplicon based biodiversity surveys because it generates the longest sequence reads. Nevertheless, the handling and organization of massive amounts of sequencing data poses a major problem for the research community, particularly when multiple researchers are involved in data acquisition and analysis. An integrated and user-friendly tool, which performs quality control, read trimming, PCR primer removal, and data organization is desperately needed, therefore, to make data interpretation fast and manageable. Findings We developed CANGS DB (Cleaning and Analyzing Next Generation Sequences DataBase a flexible, stand alone and user-friendly integrated database tool. CANGS DB is specifically designed to organize and manage the massive amount of sequencing data arising from various NGS projects. CANGS DB also provides an intuitive user interface for sequence trimming and quality control, taxonomy analysis and rarefaction analysis. Our database tool can be easily adapted to handle multiple sequencing projects in parallel with different sample information, amplicon sizes, primer sequences, and quality thresholds, which makes this software especially useful for non-bioinformaticians. Furthermore, CANGS DB is especially suited for projects where multiple users need to access the data. CANGS DB is available at http://code.google.com/p/cangsdb/. Conclusion CANGS DB provides a simple and user-friendly solution to process, store and analyze 454 sequencing data. Being a local database that is accessible through a user-friendly interface, CANGS DB provides the perfect tool for collaborative amplicon based biodiversity surveys

  7. A comprehensive aligned nifH gene database: a multipurpose tool for studies of nitrogen-fixing bacteria.

    Science.gov (United States)

    Gaby, John Christian; Buckley, Daniel H

    2014-01-01

    We describe a nitrogenase gene sequence database that facilitates analysis of the evolution and ecology of nitrogen-fixing organisms. The database contains 32 954 aligned nitrogenase nifH sequences linked to phylogenetic trees and associated sequence metadata. The database includes 185 linked multigene entries including full-length nifH, nifD, nifK and 16S ribosomal RNA (rRNA) gene sequences. Evolutionary analyses enabled by the multigene entries support an ancient horizontal transfer of nitrogenase genes between Archaea and Bacteria and provide evidence that nifH has a different history of horizontal gene transfer from the nifDK enzyme core. Further analyses show that lineages in nitrogenase cluster I and cluster III have different rates of substitution within nifD, suggesting that nifD is under different selection pressure in these two lineages. Finally, we find that that the genetic divergence of nifH and 16S rRNA genes does not correlate well at sequence dissimilarity values used commonly to define microbial species, as stains having <3% sequence dissimilarity in their 16S rRNA genes can have up to 23% dissimilarity in nifH. The nifH database has a number of uses including phylogenetic and evolutionary analyses, the design and assessment of primers/probes and the evaluation of nitrogenase sequence diversity. Database URL: http://www.css.cornell.edu/faculty/buckley/nifh.htm.

  8. Failure database and tools for wind turbine availability and reliability analyses. The application of reliability data for selected wind turbines

    DEFF Research Database (Denmark)

    Kozine, Igor; Christensen, P.; Winther-Jensen, M.

    2000-01-01

    The objective of this project was to develop and establish a database for collecting reliability and reliability-related data, for assessing the reliability of wind turbine components and subsystems and wind turbines as a whole, as well as for assessingwind turbine availability while ranking the ...... similar safety systems. The database was established with Microsoft Access DatabaseManagement System, the software for reliability and availability assessments was created with Visual Basic....... the contributions at both the component and system levels. The project resulted in a software package combining a failure database with programs for predicting WTB availability and the reliability of all thecomponents and systems, especially the safety system. The report consists of a description of the theoretical......The objective of this project was to develop and establish a database for collecting reliability and reliability-related data, for assessing the reliability of wind turbine components and subsystems and wind turbines as a whole, as well as for assessingwind turbine availability while ranking...

  9. JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update

    DEFF Research Database (Denmark)

    Bryne, J.C.; Valen, E.; Tang, M.H.E.

    2008-01-01

    JASPAR is a popular open-access database for matrix models describing DNA-binding preferences for transcription factors and other DNA patterns. With its third major release, JASPAR has been expanded and equipped with additional functions aimed at both casual and power users. The heart of the JASPAR...... databasethe JASPAR CORE sub-databasehas increased by 12 in size, and three new specialized sub-databases have been added. New functions include clustering of matrix models by similarity, generation of random matrices by sampling from selected sets of existing models and a language-independent Web Service...

  10. Data management with a landslide inventory of the Franconian Alb (Germany) using a spatial database and GIS tools

    Science.gov (United States)

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

    2014-05-01

    The area of the Swabian-Franconian cuesta landscape (Southern Germany) is highly prone to landslides. This was apparent in the late spring of 2013, when numerous landslides occurred as a consequence of heavy and long-lasting rainfalls. The specific climatic situation caused numerous damages with serious impact on settlements and infrastructure. Knowledge on spatial distribution of landslides, processes and characteristics are important to evaluate the potential risk that can occur from mass movements in those areas. In the frame of two projects about 400 landslides were mapped and detailed data sets were compiled during years 2011 to 2014 at the Franconian Alb. The studies are related to the project "Slope stability and hazard zones in the northern Bavarian cuesta" (DFG, German Research Foundation) as well as to the LfU (The Bavarian Environment Agency) within the project "Georisks and climate change - hazard indication map Jura". The central goal of the present study is to create a spatial database for landslides. The database should contain all fundamental parameters to characterize the mass movements and should provide the potential for secure data storage and data management, as well as statistical evaluations. The spatial database was created with PostgreSQL, an object-relational database management system and PostGIS, a spatial database extender for PostgreSQL, which provides the possibility to store spatial and geographic objects and to connect to several GIS applications, like GRASS GIS, SAGA GIS, QGIS and GDAL, a geospatial library (Obe et al. 2011). Database access for querying, importing, and exporting spatial and non-spatial data is ensured by using GUI or non-GUI connections. The database allows the use of procedural languages for writing advanced functions in the R, Python or Perl programming languages. It is possible to work directly with the (spatial) data entirety of the database in R. The inventory of the database includes (amongst others

  11. Database for Regional Geology, Phase 1: A Tool for Informing Regional Evaluations of Alternative Geologic Media and Decision Making

    Energy Technology Data Exchange (ETDEWEB)

    Perry, Frank Vinton [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Kelley, Richard E. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Birdsell, Suzanne M. [Clark Univ., Worcester, MA (United States); Lugo, Alexander Bryan [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Dobson, Patrick [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Houseworth, James [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

    2014-11-12

    Reported is progress in the following areas: Phase 1 and 2 websites for the regional geology GIS database; terrane maps of crystalline basement rocks; inventory of shale formations in the US; and rock properties and in-situ conditions for shale estimated from sonic velocity measurements.

  12. Phi-square Lexical Competition Database (Phi-Lex): an online tool for quantifying auditory and visual lexical competition.

    Science.gov (United States)

    Strand, Julia F

    2014-03-01

    A widely agreed-upon feature of spoken word recognition is that multiple lexical candidates in memory are simultaneously activated in parallel when a listener hears a word, and that those candidates compete for recognition (Luce, Goldinger, Auer, & Vitevitch, Perception 62:615-625, 2000; Luce & Pisoni, Ear and Hearing 19:1-36, 1998; McClelland & Elman, Cognitive Psychology 18:1-86, 1986). Because the presence of those competitors influences word recognition, much research has sought to quantify the processes of lexical competition. Metrics that quantify lexical competition continuously are more effective predictors of auditory and visual (lipread) spoken word recognition than are the categorical metrics traditionally used (Feld & Sommers, Speech Communication 53:220-228, 2011; Strand & Sommers, Journal of the Acoustical Society of America 130:1663-1672, 2011). A limitation of the continuous metrics is that they are somewhat computationally cumbersome and require access to existing speech databases. This article describes the Phi-square Lexical Competition Database (Phi-Lex): an online, searchable database that provides access to multiple metrics of auditory and visual (lipread) lexical competition for English words, available at www.juliastrand.com/phi-lex .

  13. Digital bedrock mapping at the Geological Survey of Norway: BGS SIGMA tool and in-house database structure

    Science.gov (United States)

    Gasser, Deta; Viola, Giulio; Bingen, Bernard

    2016-04-01

    Since 2010, the Geological Survey of Norway has been implementing and continuously developing a digital workflow for geological bedrock mapping in Norway, from fieldwork to final product. Our workflow is based on the ESRI ArcGIS platform, and we use rugged Windows computers in the field. Three different hardware solutions have been tested over the past 5 years (2010-2015). (1) Panasonic Toughbook CE-19 (2.3 kg), (2) Panasonic Toughbook CF H2 Field (1.6 kg) and (3) Motion MC F5t tablet (1.5 kg). For collection of point observations in the field we mainly use the SIGMA Mobile application in ESRI ArcGIS developed by the British Geological Survey, which allows the mappers to store georeferenced comments, structural measurements, sample information, photographs, sketches, log information etc. in a Microsoft Access database. The application is freely downloadable from the BGS websites. For line- and polygon work we use our in-house database, which is currently under revision. Our line database consists of three feature classes: (1) bedrock boundaries, (2) bedrock lineaments, and (3) bedrock lines, with each feature class having up to 24 different attribute fields. Our polygon database consists of one feature class with 38 attribute fields enabling to store various information concerning lithology, stratigraphic order, age, metamorphic grade and tectonic subdivision. The polygon and line databases are coupled via topology in ESRI ArcGIS, which allows us to edit them simultaneously. This approach has been applied in two large-scale 1:50 000 bedrock mapping projects, one in the Kongsberg domain of the Sveconorwegian orogen, and the other in the greater Trondheim area (Orkanger) in the Caledonian belt. The mapping projects combined collection of high-resolution geophysical data, digital acquisition of field data, and collection of geochronological, geochemical and petrological data. During the Kongsberg project, some 25000 field observation points were collected by eight

  14. Investigating the Potential Impacts of Energy Production in the Marcellus Shale Region Using the Shale Network Database and CUAHSI-Supported Data Tools

    Science.gov (United States)

    Brazil, L.

    2017-12-01

    The Shale Network's extensive database of water quality observations enables educational experiences about the potential impacts of resource extraction with real data. Through open source tools that are developed and maintained by the Consortium of Universities for the Advancement of Hydrologic Science, Inc. (CUAHSI), researchers, educators, and citizens can access and analyze the very same data that the Shale Network team has used in peer-reviewed publications about the potential impacts of hydraulic fracturing on water. The development of the Shale Network database has been made possible through collection efforts led by an academic team and involving numerous individuals from government agencies, citizen science organizations, and private industry. Thus far, CUAHSI-supported data tools have been used to engage high school students, university undergraduate and graduate students, as well as citizens so that all can discover how energy production impacts the Marcellus Shale region, which includes Pennsylvania and other nearby states. This presentation will describe these data tools, how the Shale Network has used them in developing educational material, and the resources available to learn more.

  15. A survey and evaluation of Web-based tools/databases for variant analysis of TCGA data.

    Science.gov (United States)

    Zhang, Zhuo; Li, Hao; Jiang, Shuai; Li, Ruijiang; Li, Wanying; Chen, Hebing; Bo, Xiaochen

    2018-03-29

    The Cancer Genome Atlas (TCGA) is a publicly funded project that aims to catalog and discover major cancer-causing genomic alterations with the goal of creating a comprehensive 'atlas' of cancer genomic profiles. The availability of this genome-wide information provides an unprecedented opportunity to expand our knowledge of tumourigenesis. Computational analytics and mining are frequently used as effective tools for exploring this byzantine series of biological and biomedical data. However, some of the more advanced computational tools are often difficult to understand or use, thereby limiting their application by scientists who do not have a strong computational background. Hence, it is of great importance to build user-friendly interfaces that allow both computational scientists and life scientists without a computational background to gain greater biological and medical insights. To that end, this survey was designed to systematically present available Web-based tools and facilitate the use TCGA data for cancer research.

  16. EpiHosp: A web-based visualization tool enabling the exploratory analysis of complications of implantable medical devices from a nationwide hospital database.

    Science.gov (United States)

    Ficheur, Grégoire; Ferreira Careira, Lionel; Beuscart, Régis; Chazard, Emmanuel

    2015-01-01

    Administrative data can be used for the surveillance of the outcomes of implantable medical devices (IMDs). The objective of this work is to build a web-based tool allowing for an exploratory analysis of time-dependent events that may occur after the implementation of an IMD. This tool should enable a pharmacoepidemiologist to explore on the fly the relationship between a given IMD and a potential outcome. This tool mine the French nationwide database of inpatient stays from 2008 to 2013. The data are preprocessed in order to optimize the queries. A web tool is developed in PHP, MySQL and Javascript. The user selects one or a group of IMD from a tree, and can filter the results using years and hospital names. Four result pages describe the selected inpatient stays: (1) temporal and demographic description, (2) a description of the geographical location of the hospital, (3) a description of the geographical place of residence of the patient and (4) a table showing the rehospitalization reasons by decreasing order of frequency. Then, the user can select one readmission reason and display dynamically the probability of readmission by mean of a Kaplan-Meier curve with confidence intervals. This tool enables to dynamically monitor the occurrence of time-dependent complications of IMD.

  17. Childhood immunization rates in rural Intibucá, Honduras: an analysis of a local database tool and community health center records for assessing and improving vaccine coverage.

    Science.gov (United States)

    He, Yuan; Zarychta, Alan; Ranz, Joseph B; Carroll, Mary; Singleton, Lori M; Wilson, Paria M; Schlaudecker, Elizabeth P

    2012-12-07

    Vaccines are highly effective at preventing infectious diseases in children, and prevention is especially important in resource-limited countries where treatment is difficult to access. In Honduras, the World Health Organization (WHO) reports very high immunization rates in children. To determine whether or not these estimates accurately depict the immunization coverage in non-urban regions of the country, we compared the WHO data to immunization rates obtained from a local database tool and community health center records in rural Intibucá, Honduras. We used data from two sources to comprehensively evaluate immunization rates in the area: 1) census data from a local database and 2) immunization data collected at health centers. We compared these rates using logistic regression, and we compared them to publicly available WHO-reported estimates using confidence interval inclusion. We found that mean immunization rates for each vaccine were high (range 84.4 to 98.8 percent), but rates recorded at the health centers were significantly higher than those reported from the census data (p ≤ 0.001). Combining the results from both databases, the mean rates of four out of five vaccines were less than WHO-reported rates (p 0.05), except for diphtheria/tetanus/pertussis vaccine (p=0.02) and oral polio vaccine (p Honduras were high across data sources, though most of the rates recorded in rural Honduras were less than WHO-reported rates. Despite geographical difficulties and barriers to access, the local database and Honduran community health workers have developed a thorough system for ensuring that children receive their immunizations on time. The successful integration of community health workers and a database within the Honduran decentralized health system may serve as a model for other immunization programs in resource-limited countries where health care is less accessible.

  18. The Microbial Database for Danish wastewater treatment plants with nutrient removal (MiDas-DK) – a tool for understanding activated sludge population dynamics and community stability

    DEFF Research Database (Denmark)

    Mielczarek, Artur Tomasz; Saunders, Aaron Marc; Larsen, Poul

    2013-01-01

    Since 2006 more than 50 Danish full-scale wastewater treatment plants with nutrient removal have been investigated in a project called ‘The Microbial Database for Danish Activated Sludge Wastewater Treatment Plants with Nutrient Removal (MiDas-DK)’. Comprehensive sets of samples have been collected......, analyzed and associated with extensive operational data from the plants. The community composition was analyzed by quantitative fluorescence in situ hybridization (FISH) supported by 16S rRNA amplicon sequencing and deep metagenomics. MiDas-DK has been a powerful tool to study the complex activated sludge...

  19. Critical Care Health Informatics Collaborative (CCHIC): Data, tools and methods for reproducible research: A multi-centre UK intensive care database.

    Science.gov (United States)

    Harris, Steve; Shi, Sinan; Brealey, David; MacCallum, Niall S; Denaxas, Spiros; Perez-Suarez, David; Ercole, Ari; Watkinson, Peter; Jones, Andrew; Ashworth, Simon; Beale, Richard; Young, Duncan; Brett, Stephen; Singer, Mervyn

    2018-04-01

    To build and curate a linkable multi-centre database of high resolution longitudinal electronic health records (EHR) from adult Intensive Care Units (ICU). To develop a set of open-source tools to make these data 'research ready' while protecting patient's privacy with a particular focus on anonymisation. We developed a scalable EHR processing pipeline for extracting, linking, normalising and curating and anonymising EHR data. Patient and public involvement was sought from the outset, and approval to hold these data was granted by the NHS Health Research Authority's Confidentiality Advisory Group (CAG). The data are held in a certified Data Safe Haven. We followed sustainable software development principles throughout, and defined and populated a common data model that links to other clinical areas. Longitudinal EHR data were loaded into the CCHIC database from eleven adult ICUs at 5 UK teaching hospitals. From January 2014 to January 2017, this amounted to 21,930 and admissions (18,074 unique patients). Typical admissions have 70 data-items pertaining to admission and discharge, and a median of 1030 (IQR 481-2335) time-varying measures. Training datasets were made available through virtual machine images emulating the data processing environment. An open source R package, cleanEHR, was developed and released that transforms the data into a square table readily analysable by most statistical packages. A simple language agnostic configuration file will allow the user to select and clean variables, and impute missing data. An audit trail makes clear the provenance of the data at all times. Making health care data available for research is problematic. CCHIC is a unique multi-centre longitudinal and linkable resource that prioritises patient privacy through the highest standards of data security, but also provides tools to clean, organise, and anonymise the data. We believe the development of such tools are essential if we are to meet the twin requirements of

  20. Effect of a patient engagement tool on positive airway pressure adherence: analysis of a German healthcare provider database.

    Science.gov (United States)

    Woehrle, Holger; Arzt, Michael; Graml, Andrea; Fietze, Ingo; Young, Peter; Teschler, Helmut; Ficker, Joachim H

    2018-01-01

    This study investigated the addition of a real-time feedback patient engagement tool on positive airway pressure (PAP) adherence when added to a proactive telemedicine strategy. Data from a German healthcare provider (ResMed Healthcare Germany) were retrospectively analyzed. Patients who first started PAP therapy between 1 September 2009 and 30 April 2014, and were managed using telemedicine (AirView™; proactive care) or telemedicine + patient engagement tool (AirView™ + myAir™; patient engagement) were eligible. Patient demographics, therapy start date, sleep-disordered breathing indices, device usage hours, and therapy termination rate were obtained and compared between the two groups. The first 500 patients managed by telemedicine-guided care and a patient engagement tool were matched with 500 patients managed by telemedicine-guided care only. The proportion of nights with device usage ≥4 h was 77 ± 25% in the patient engagement group versus 63 ± 32% in the proactive care group (p < 0.001). Therapy termination occurred less often in the patient engagement group (p < 0.001). The apnea-hypopnea index was similar in the two groups, but leak was significantly lower in the patient engagement versus proactive care group (2.7 ± 4.0 vs 4.1 ± 5.3 L/min; p < 0.001). Addition of a patient engagement tool to telemonitoring-guided proactive care was associated with higher device usage and lower leak. This suggests that addition of an engagement tool may help improve PAP therapy adherence and reduce mask leak. Copyright © 2017 The Authors. Published by Elsevier B.V. All rights reserved.

  1. SU-F-P-35: A Multi-Institutional Plan Quality Checking Tool Built On Oncospace: A Shared Radiation Oncology Database System

    International Nuclear Information System (INIS)

    Bowers, M; Robertson, S; Moore, J; Wong, J; Phillips, M; Hendrickson, K; Evans, K; McNutt, T

    2016-01-01

    Purpose: Late toxicity from radiation to critical structures limits the possible dose in Radiation Therapy. Perfectly conformal treatment of a target is not realizable, so the clinician must accept a certain level of collateral radiation to nearby OARs. But how much? General guidelines exist for healthy tissue sparing which guide RT treatment planning, but are these guidelines good enough to create the optimal plan given the individualized patient anatomy? We propose a means to evaluate the planned dose level to an OAR using a multi-institutional data-store of previously treated patients, so a clinician might reconsider planning objectives. Methods: The tool is built on Oncospace, a federated data-store system, which consists of planning data import, web based analysis tools, and a database containing:1) DVHs: dose by percent volume delivered to each ROI for each patient previously treated and included in the database.2) Overlap Volume Histograms (OVHs): Anatomical measure defined as the percent volume of an ROI within a given distance to target structures.Clinicians know what OARs are important to spare. For any ROI, Oncospace knows for which patients’ anatomy that ROI was harder to plan in the past (the OVH is less). The planned dose should be close to the least dose of previous patients. The tool displays the dose those OARs were subjected to, and the clinician can make a determination about the planning objectives used.Multiple institutions contribute to the Oncospace Consortium, and their DVH and OVH data are combined and color coded in the output. Results: The Oncospace website provides a plan quality display tool which identifies harder to treat patients, and graphically displays the dose delivered to them for comparison with the proposed plan. Conclusion: The Oncospace Consortium manages a data-store of previously treated patients which can be used for quality checking new plans. Grant funding by Elekta.

  2. New orthopaedic implant management tool for computer-assisted planning, navigation, and simulation: from implant CAD files to a standardized XML-based implant database.

    Science.gov (United States)

    Sagbo, S; Blochaou, F; Langlotz, F; Vangenot, C; Nolte, L-P; Zheng, G

    2005-01-01

    Computer-Assisted Orthopaedic Surgery (CAOS) has made much progress over the last 10 years. Navigation systems have been recognized as important tools that help surgeons, and various such systems have been developed. A disadvantage of these systems is that they use non-standard formalisms and techniques. As a result, there are no standard concepts for implant and tool management or data formats to store information for use in 3D planning and navigation. We addressed these limitations and developed a practical and generic solution that offers benefits for surgeons, implant manufacturers, and CAS application developers. We developed a virtual implant database containing geometrical as well as calibration information for orthopedic implants and instruments, with a focus on trauma. This database has been successfully tested for various applications in the client/server mode. The implant information is not static, however, because manufacturers periodically revise their implants, resulting in the deletion of some implants and the introduction of new ones. Tracking these continuous changes and keeping CAS systems up to date is a tedious task if done manually. This leads to additional costs for system development, and some errors are inevitably generated due to the huge amount of information that has to be processed. To ease management with respect to implant life cycle, we developed a tool to assist end-users (surgeons, hospitals, CAS system providers, and implant manufacturers) in managing their implants. Our system can be used for pre-operative planning and intra-operative navigation, and also for any surgical simulation involving orthopedic implants. Currently, this tool allows addition of new implants, modification of existing ones, deletion of obsolete implants, export of a given implant, and also creation of backups. Our implant management system has been successfully tested in the laboratory with very promising results. It makes it possible to fill the current gap

  3. SU-F-P-35: A Multi-Institutional Plan Quality Checking Tool Built On Oncospace: A Shared Radiation Oncology Database System

    Energy Technology Data Exchange (ETDEWEB)

    Bowers, M; Robertson, S; Moore, J; Wong, J [Johns Hopkins University, Baltimore, MD (United States); Phillips, M [University Washington, Seattle, WA (United States); Hendrickson, K; Evans, K [University of Washington, Seattle, WA (United States); McNutt, T [Johns Hopkins University, Severna Park, MD (United States)

    2016-06-15

    Purpose: Late toxicity from radiation to critical structures limits the possible dose in Radiation Therapy. Perfectly conformal treatment of a target is not realizable, so the clinician must accept a certain level of collateral radiation to nearby OARs. But how much? General guidelines exist for healthy tissue sparing which guide RT treatment planning, but are these guidelines good enough to create the optimal plan given the individualized patient anatomy? We propose a means to evaluate the planned dose level to an OAR using a multi-institutional data-store of previously treated patients, so a clinician might reconsider planning objectives. Methods: The tool is built on Oncospace, a federated data-store system, which consists of planning data import, web based analysis tools, and a database containing:1) DVHs: dose by percent volume delivered to each ROI for each patient previously treated and included in the database.2) Overlap Volume Histograms (OVHs): Anatomical measure defined as the percent volume of an ROI within a given distance to target structures.Clinicians know what OARs are important to spare. For any ROI, Oncospace knows for which patients’ anatomy that ROI was harder to plan in the past (the OVH is less). The planned dose should be close to the least dose of previous patients. The tool displays the dose those OARs were subjected to, and the clinician can make a determination about the planning objectives used.Multiple institutions contribute to the Oncospace Consortium, and their DVH and OVH data are combined and color coded in the output. Results: The Oncospace website provides a plan quality display tool which identifies harder to treat patients, and graphically displays the dose delivered to them for comparison with the proposed plan. Conclusion: The Oncospace Consortium manages a data-store of previously treated patients which can be used for quality checking new plans. Grant funding by Elekta.

  4. Methodological framework, analytical tool and database for the assessment of climate change impacts, adaptation and vulnerability in Denmark

    Energy Technology Data Exchange (ETDEWEB)

    Skougaard Kaspersen, P.; Halsnaes, K.; Gregg, J.; Drews, M.

    2012-12-15

    In this report we provide recommendations about how more consistent studies and data can be provided based on available modelling tools and data for integrated assessment of climate change risks and adaptation options. It is concluded that integrated assessments within this area requires the use of a wide range of data and models in order to cover the full chain of elements including climate modelling, impact, risks, costs, social issues, and decision making. As an outcome of this activity a comprehensive data and modelling tool named Danish Integrated Assessment System (DIAS) has been developed, this may be used by researchers within the field. DIAS has been implemented and tested in a case study on urban flooding caused by extreme precipitation in Aarhus, and this study highlights the usefulness of integrating data, models, and methods from several disciplines into a common framework. DIAS is an attempt to describe such a framework with regards to integrated analysis of climate impacts and adaptation. The final product of the DTU KFT project ''Tool for Vulnerability analysis'' is NOT a user friendly Climate Adaptation tool ready for various types of analysis that may directly be used by decision makers and consultant on their own. Rather developed methodology and collected/available data can serve as a starting point for case specific analyses. For this reason alone this work should very much be viewed as an attempt to coordinate research, data and models outputs between different research institutes from various disciplines. It is unquestionable that there is a future need to integrate information for areas not yet included, and it is very likely that such efforts will depend on research projects conducted in different climate change adaptation areas and sectors in Denmark. (Author)

  5. Assessment of the structural and functional impact of in-frame mutations of the DMD gene, using the tools included in the eDystrophin online database

    Directory of Open Access Journals (Sweden)

    Nicolas Aurélie

    2012-07-01

    Full Text Available Abstract Background Dystrophin is a large essential protein of skeletal and heart muscle. It is a filamentous scaffolding protein with numerous binding domains. Mutations in the DMD gene, which encodes dystrophin, mostly result in the deletion of one or several exons and cause Duchenne (DMD and Becker (BMD muscular dystrophies. The most common DMD mutations are frameshift mutations resulting in an absence of dystrophin from tissues. In-frame DMD mutations are less frequent and result in a protein with partial wild-type dystrophin function. The aim of this study was to highlight structural and functional modifications of dystrophin caused by in-frame mutations. Methods and results We developed a dedicated database for dystrophin, the eDystrophin database. It contains 209 different non frame-shifting mutations found in 945 patients from a French cohort and previous studies. Bioinformatics tools provide models of the three-dimensional structure of the protein at deletion sites, making it possible to determine whether the mutated protein retains the typical filamentous structure of dystrophin. An analysis of the structure of mutated dystrophin molecules showed that hybrid repeats were reconstituted at the deletion site in some cases. These hybrid repeats harbored the typical triple coiled-coil structure of native repeats, which may be correlated with better function in muscle cells. Conclusion This new database focuses on the dystrophin protein and its modification due to in-frame deletions in BMD patients. The observation of hybrid repeat reconstitution in some cases provides insight into phenotype-genotype correlations in dystrophin diseases and possible strategies for gene therapy. The eDystrophin database is freely available: http://edystrophin.genouest.org/.

  6. Oceans of Data: In what ways can learning research inform the development of electronic interfaces and tools for use by students accessing large scientific databases?

    Science.gov (United States)

    Krumhansl, R. A.; Foster, J.; Peach, C. L.; Busey, A.; Baker, I.

    2012-12-01

    The practice of science and engineering is being revolutionized by the development of cyberinfrastructure for accessing near real-time and archived observatory data. Large cyberinfrastructure projects have the potential to transform the way science is taught in high school classrooms, making enormous quantities of scientific data available, giving students opportunities to analyze and draw conclusions from many kinds of complex data, and providing students with experiences using state-of-the-art resources and techniques for scientific investigations. However, online interfaces to scientific data are built by scientists for scientists, and their design can significantly impede broad use by novices. Knowledge relevant to the design of student interfaces to complex scientific databases is broadly dispersed among disciplines ranging from cognitive science to computer science and cartography and is not easily accessible to designers of educational interfaces. To inform efforts at bridging scientific cyberinfrastructure to the high school classroom, Education Development Center, Inc. and the Scripps Institution of Oceanography conducted an NSF-funded 2-year interdisciplinary review of literature and expert opinion pertinent to making interfaces to large scientific databases accessible to and usable by precollege learners and their teachers. Project findings are grounded in the fundamentals of Cognitive Load Theory, Visual Perception, Schemata formation and Universal Design for Learning. The Knowledge Status Report (KSR) presents cross-cutting and visualization-specific guidelines that highlight how interface design features can address/ ameliorate challenges novice high school students face as they navigate complex databases to find data, and construct and look for patterns in maps, graphs, animations and other data visualizations. The guidelines present ways to make scientific databases more broadly accessible by: 1) adjusting the cognitive load imposed by the user

  7. MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects.

    Science.gov (United States)

    Holt, Carson; Yandell, Mark

    2011-12-22

    Second-generation sequencing technologies are precipitating major shifts with regards to what kinds of genomes are being sequenced and how they are annotated. While the first generation of genome projects focused on well-studied model organisms, many of today's projects involve exotic organisms whose genomes are largely terra incognita. This complicates their annotation, because unlike first-generation projects, there are no pre-existing 'gold-standard' gene-models with which to train gene-finders. Improvements in genome assembly and the wide availability of mRNA-seq data are also creating opportunities to update and re-annotate previously published genome annotations. Today's genome projects are thus in need of new genome annotation tools that can meet the challenges and opportunities presented by second-generation sequencing technologies. We present MAKER2, a genome annotation and data management tool designed for second-generation genome projects. MAKER2 is a multi-threaded, parallelized application that can process second-generation datasets of virtually any size. We show that MAKER2 can produce accurate annotations for novel genomes where training-data are limited, of low quality or even non-existent. MAKER2 also provides an easy means to use mRNA-seq data to improve annotation quality; and it can use these data to update legacy annotations, significantly improving their quality. We also show that MAKER2 can evaluate the quality of genome annotations, and identify and prioritize problematic annotations for manual review. MAKER2 is the first annotation engine specifically designed for second-generation genome projects. MAKER2 scales to datasets of any size, requires little in the way of training data, and can use mRNA-seq data to improve annotation quality. It can also update and manage legacy genome annotation datasets.

  8. Database for High Throughput Screening Hits (dHITS): a simple tool to retrieve gene specific phenotypes from systematic screens done in yeast.

    Science.gov (United States)

    Chuartzman, Silvia G; Schuldiner, Maya

    2018-03-25

    In the last decade several collections of Saccharomyces cerevisiae yeast strains have been created. In these collections every gene is modified in a similar manner such as by a deletion or the addition of a protein tag. Such libraries have enabled a diversity of systematic screens, giving rise to large amounts of information regarding gene functions. However, often papers describing such screens focus on a single gene or a small set of genes and all other loci affecting the phenotype of choice ('hits') are only mentioned in tables that are provided as supplementary material and are often hard to retrieve or search. To help unify and make such data accessible, we have created a Database of High Throughput Screening Hits (dHITS). The dHITS database enables information to be obtained about screens in which genes of interest were found as well as the other genes that came up in that screen - all in a readily accessible and downloadable format. The ability to query large lists of genes at the same time provides a platform to easily analyse hits obtained from transcriptional analyses or other screens. We hope that this platform will serve as a tool to facilitate investigation of protein functions to the yeast community. © 2018 The Authors Yeast Published by John Wiley & Sons Ltd.

  9. Database and Analytical Tool Development for the Management of Data Derived from US DOE (NETL) Funded Fine Particulate (PM2.5) Research

    Energy Technology Data Exchange (ETDEWEB)

    Robinson Khosah

    2007-07-31

    Advanced Technology Systems, Inc. (ATS) was contracted by the U. S. Department of Energy's National Energy Technology Laboratory (DOE-NETL) to develop a state-of-the-art, scalable and robust web-accessible database application to manage the extensive data sets resulting from the DOE-NETL-sponsored ambient air monitoring programs in the upper Ohio River valley region. The data management system was designed to include a web-based user interface that will allow easy access to the data by the scientific community, policy- and decision-makers, and other interested stakeholders, while providing detailed information on sampling, analytical and quality control parameters. In addition, the system will provide graphical analytical tools for displaying, analyzing and interpreting the air quality data. The system will also provide multiple report generation capabilities and easy-to-understand visualization formats that can be utilized by the media and public outreach/educational institutions. The project was conducted in two phases. Phase One included the following tasks: (1) data inventory/benchmarking, including the establishment of an external stakeholder group; (2) development of a data management system; (3) population of the database; (4) development of a web-based data retrieval system, and (5) establishment of an internal quality assurance/quality control system on data management. Phase Two involved the development of a platform for on-line data analysis. Phase Two included the following tasks: (1) development of a sponsor and stakeholder/user website with extensive online analytical tools; (2) development of a public website; (3) incorporation of an extensive online help system into each website; and (4) incorporation of a graphical representation (mapping) system into each website. The project is now technically completed.

  10. Database and Analytical Tool Development for the Management of Data Derived from US DOE (NETL) Funded Fine Particulate (PM2.5) Research

    Energy Technology Data Exchange (ETDEWEB)

    Robinson P. Khosah; Frank T. Alex

    2007-02-11

    Advanced Technology Systems, Inc. (ATS) was contracted by the U. S. Department of Energy's National Energy Technology Laboratory (DOE-NETL) to develop a state-of-the-art, scalable and robust web-accessible database application to manage the extensive data sets resulting from the DOE-NETL-sponsored ambient air monitoring programs in the upper Ohio River valley region. The data management system was designed to include a web-based user interface that will allow easy access to the data by the scientific community, policy- and decision-makers, and other interested stakeholders, while providing detailed information on sampling, analytical and quality control parameters. In addition, the system will provide graphical analytical tools for displaying, analyzing and interpreting the air quality data. The system will also provide multiple report generation capabilities and easy-to-understand visualization formats that can be utilized by the media and public outreach/educational institutions. The project is being conducted in two phases. Phase One includes the following tasks: (1) data inventory/benchmarking, including the establishment of an external stakeholder group; (2) development of a data management system; (3) population of the database; (4) development of a web-based data retrieval system, and (5) establishment of an internal quality assurance/quality control system on data management. Phase Two, which is currently underway, involves the development of a platform for on-line data analysis. Phase Two includes the following tasks: (1) development of a sponsor and stakeholder/user website with extensive online analytical tools; (2) development of a public website; (3) incorporation of an extensive online help system into each website; and (4) incorporation of a graphical representation (mapping) system into each website. The project is now into its forty-eighth month of development activities.

  11. DATABASE AND ANALYTICAL TOOL DEVELOPMENT FOR THE MANAGEMENT OF DATA DERIVED FROM US DOE (NETL) FUNDED FINE PARTICULATE (PM2.5) RESEARCH

    Energy Technology Data Exchange (ETDEWEB)

    Robinson P. Khosah; Charles G. Crawford

    2003-03-13

    Advanced Technology Systems, Inc. (ATS) was contracted by the U. S. Department of Energy's National Energy Technology Laboratory (DOE-NETL) to develop a state-of-the-art, scalable and robust web-accessible database application to manage the extensive data sets resulting from the DOE-NETL-sponsored ambient air monitoring programs in the upper Ohio River valley region. The data management system was designed to include a web-based user interface that will allow easy access to the data by the scientific community, policy- and decision-makers, and other interested stakeholders, while providing detailed information on sampling, analytical and quality control parameters. In addition, the system will provide graphical analytical tools for displaying, analyzing and interpreting the air quality data. The system will also provide multiple report generation capabilities and easy-to-understand visualization formats that can be utilized by the media and public outreach/educational institutions. The project is being conducted in two phases. Phase 1, which is currently in progress and will take twelve months to complete, will include the following tasks: (1) data inventory/benchmarking, including the establishment of an external stakeholder group; (2) development of a data management system; (3) population of the database; (4) development of a web-based data retrieval system, and (5) establishment of an internal quality assurance/quality control system on data management. In Phase 2, which will be completed in the second year of the project, a platform for on-line data analysis will be developed. Phase 2 will include the following tasks: (1) development of a sponsor and stakeholder/user website with extensive online analytical tools; (2) development of a public website; (3) incorporation of an extensive online help system into each website; and (4) incorporation of a graphical representation (mapping) system into each website. The project is now into its sixth month of Phase

  12. Stackfile Database

    Science.gov (United States)

    deVarvalho, Robert; Desai, Shailen D.; Haines, Bruce J.; Kruizinga, Gerhard L.; Gilmer, Christopher

    2013-01-01

    This software provides storage retrieval and analysis functionality for managing satellite altimetry data. It improves the efficiency and analysis capabilities of existing database software with improved flexibility and documentation. It offers flexibility in the type of data that can be stored. There is efficient retrieval either across the spatial domain or the time domain. Built-in analysis tools are provided for frequently performed altimetry tasks. This software package is used for storing and manipulating satellite measurement data. It was developed with a focus on handling the requirements of repeat-track altimetry missions such as Topex and Jason. It was, however, designed to work with a wide variety of satellite measurement data [e.g., Gravity Recovery And Climate Experiment -- GRACE). The software consists of several command-line tools for importing, retrieving, and analyzing satellite measurement data.

  13. Linkage between the Danish National Health Service Prescription Database, the Danish Fetal Medicine Database, and other Danish registries as a tool for the study of drug safety in pregnancy

    DEFF Research Database (Denmark)

    Pedersen, Lars Henning; Petersen, Olav Bjørn; Nørgaard, Mette

    2016-01-01

    A linked population-based database is being created in Denmark for research on drug safety during pregnancy. It combines information from the Danish National Health Service Prescription Database (with information on all prescriptions reimbursed in Denmark since 2004), the Danish Fetal Medicine...

  14. A construction of standardized near infrared hyper-spectral teeth database: a first step in the development of reliable diagnostic tool for quantification and early detection of caries

    Science.gov (United States)

    Bürmen, Miran; Usenik, Peter; Fidler, Aleš; Pernuš, Franjo; Likar, Boštjan

    2011-03-01

    Dental caries is a disease characterized by demineralization of enamel crystals leading to the penetration of bacteria into the dentin and pulp. If left untreated, the disease can lead to pain, infection and tooth loss. Early detection of enamel demineralization resulting in increased enamel porosity, commonly known as white spots, is a difficult diagnostic task. Several papers reported on near infrared (NIR) spectroscopy to be a potentially useful noninvasive spectroscopic technique for early detection of caries lesions. However, the conducted studies were mostly qualitative and did not include the critical assessment of the spectral variability of the sound and carious dental tissues and influence of the water content. Such assessment is essential for development and validation of reliable qualitative and especially quantitative diagnostic tools based on NIR spectroscopy. In order to characterize the described spectral variability, a standardized diffuse reflectance hyper-spectral database was constructed by imaging 12 extracted human teeth with natural lesions of various degrees in the spectral range from 900 to 1700 nm with spectral resolution of 10 nm. Additionally, all the teeth were imaged by digital color camera. The influence of water content on the acquired spectra was characterized by monitoring the teeth during the drying process. The images were assessed by an expert, thereby obtaining the gold standard. By analyzing the acquired spectra we were able to accurately model the spectral variability of the sound dental tissues and identify the advantages and limitations of NIR hyper-spectral imaging.

  15. 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.

  16. Comparing genomes: databases and computational tools for comparative analysis of prokaryotic genomes - DOI: 10.3395/reciis.v1i2.Sup.105en

    Directory of Open Access Journals (Sweden)

    Marcos Catanho

    2007-12-01

    Full Text Available Since the 1990's, the complete genetic code of more than 600 living organisms has been deciphered, such as bacteria, yeasts, protozoan parasites, invertebrates and vertebrates, including Homo sapiens, and plants. More than 2,000 other genome projects representing medical, commercial, environmental and industrial interests, or comprising model organisms, important for the development of the scientific research, are currently in progress. The achievement of complete genome sequences of numerous species combined with the tremendous progress in computation that occurred in the last few decades allowed the use of new holistic approaches in the study of genome structure, organization and evolution, as well as in the field of gene prediction and functional classification. Numerous public or proprietary databases and computational tools have been created attempting to optimize the access to this information through the web. In this review, we present the main resources available through the web for comparative analysis of prokaryotic genomes. We concentrated on the group of mycobacteria that contains important human and animal pathogens. The birth of Bioinformatics and Computational Biology and the contributions of these disciplines to the scientific development of this field are also discussed.

  17. OTI Activity Database

    Data.gov (United States)

    US Agency for International Development — OTI's worldwide activity database is a simple and effective information system that serves as a program management, tracking, and reporting tool. In each country,...

  18. Records Management Database

    Data.gov (United States)

    US Agency for International Development — The Records Management Database is tool created in Microsoft Access specifically for USAID use. It contains metadata in order to access and retrieve the information...

  19. Specialist Bibliographic Databases

    OpenAIRE

    Gasparyan, Armen Yuri; Yessirkepov, Marlen; Voronov, Alexander A.; Trukhachev, Vladimir I.; Kostyukova, Elena I.; Gerasimov, Alexey N.; Kitas, George D.

    2016-01-01

    Specialist bibliographic databases offer essential online tools for researchers and authors who work on specific subjects and perform comprehensive and systematic syntheses of evidence. This article presents examples of the established specialist databases, which may be of interest to those engaged in multidisciplinary science communication. Access to most specialist databases is through subscription schemes and membership in professional associations. Several aggregators of information and d...

  20. The Microbial Database for Danish wastewater treatment plants with nutrient removal (MiDas-DK) - a tool for understanding activated sludge population dynamics and community stability.

    Science.gov (United States)

    Mielczarek, A T; Saunders, A M; Larsen, P; Albertsen, M; Stevenson, M; Nielsen, J L; Nielsen, P H

    2013-01-01

    Since 2006 more than 50 Danish full-scale wastewater treatment plants with nutrient removal have been investigated in a project called 'The Microbial Database for Danish Activated Sludge Wastewater Treatment Plants with Nutrient Removal (MiDas-DK)'. Comprehensive sets of samples have been collected, analyzed and associated with extensive operational data from the plants. The community composition was analyzed by quantitative fluorescence in situ hybridization (FISH) supported by 16S rRNA amplicon sequencing and deep metagenomics. MiDas-DK has been a powerful tool to study the complex activated sludge ecosystems, and, besides many scientific articles on fundamental issues on mixed communities encompassing nitrifiers, denitrifiers, bacteria involved in P-removal, hydrolysis, fermentation, and foaming, the project has provided results that can be used to optimize the operation of full-scale plants and carry out trouble-shooting. A core microbial community has been defined comprising the majority of microorganisms present in the plants. Time series have been established, providing an overview of temporal variations in the different plants. Interestingly, although most microorganisms were present in all plants, there seemed to be plant-specific factors that controlled the population composition thereby keeping it unique in each plant over time. Statistical analyses of FISH and operational data revealed some correlations, but less than expected. MiDas-DK (www.midasdk.dk) will continue over the next years and we hope the approach can inspire others to make similar projects in other parts of the world to get a more comprehensive understanding of microbial communities in wastewater engineering.

  1. Product Licenses Database Application

    CERN Document Server

    Tonkovikj, Petar

    2016-01-01

    The goal of this project is to organize and centralize the data about software tools available to CERN employees, as well as provide a system that would simplify the license management process by providing information about the available licenses and their expiry dates. The project development process is consisted of two steps: modeling the products (software tools), product licenses, legal agreements and other data related to these entities in a relational database and developing the front-end user interface so that the user can interact with the database. The result is an ASP.NET MVC web application with interactive views for displaying and managing the data in the underlying database.

  2. Linkage between the Danish National Health Service Prescription Database, the Danish Fetal Medicine Database, and other Danish registries as a tool for the study of drug safety in pregnancy

    Directory of Open Access Journals (Sweden)

    Pedersen LH

    2016-05-01

    Full Text Available Lars H Pedersen,1,2 Olav B Petersen,1,2 Mette Nørgaard,3 Charlotte Ekelund,4 Lars Pedersen,3 Ann Tabor,4 Henrik T Sørensen3 1Department of Clinical Medicine, Aarhus University, 2Department of Obstetrics and Gynecology, 3Department of Clinical Epidemiology, Aarhus University Hospital, Aarhus, 4Department of Fetal Medicine, Rigshospitalet, Copenhagen, Denmark Abstract: A linked population-based database is being created in Denmark for research on drug safety during pregnancy. It combines information from the Danish National Health Service Prescription Database (with information on all prescriptions reimbursed in Denmark since 2004, the Danish Fetal Medicine Database, the Danish National Registry of Patients, and the Medical Birth Registry. The new linked database will provide validated information on malformations diagnosed both prenatally and postnatally. The cohort from 2008 to 2014 will comprise 589,000 pregnancies with information on 424,000 pregnancies resulting in live-born children, ~420,000 pregnancies undergoing prenatal ultrasound scans, 65,000 miscarriages, and 92,000 terminations. It will be updated yearly with information on ~80,000 pregnancies. The cohort will enable identification of drug exposures associated with severe malformations, not only based on malformations diagnosed after birth but also including those having led to termination of pregnancy or miscarriage. Such combined data will provide a unique source of information for research on the safety of medications used during pregnancy. Keywords: malformations, teratology, therapeutic drug monitoring, epidemiological methods, registries

  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. PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences

    OpenAIRE

    Lescot, Magali; Déhais, Patrice; Thijs, Gert; Marchal, Kathleen; Moreau, Yves; Van de Peer, Yves; Rouzé, Pierre; Rombauts, Stephane

    2002-01-01

    PlantCARE is a database of plant cis-acting regulatory elements, enhancers and repressors. Regulatory elements are represented by positional matrices, consensus sequences and individual sites on particular promoter sequences. Links to the EMBL, TRANSFAC and MEDLINE databases are provided when available. Data about the transcription sites are extracted mainly from the literature, supplemented with an increasing number of in silico predicted data. Apart from a general description for specific t...

  5. 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.

  6. 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...

  7. 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…

  8. Students are Confident Using Federated Search Tools as much as Single Databases. A Review of: Armstrong, A. (2009. Student perceptions of federated searching vs. single database searching. Reference Services Review, 37(3, 291-303. doi:10.1108/00907320910982785

    Directory of Open Access Journals (Sweden)

    Deena Yanofsky

    2011-09-01

    Full Text Available Objective – To measure students’ perceptions of the ease-of-use and efficacy of a federated search tool versus a single multidisciplinary database.Design – An evaluation worksheet, employing a combination of quantitative and qualitative questions.Setting – A required, first-year English composition course taught at the University of Illinois at Chicago (UIC.Subjects – Thirty-one undergraduate students completed and submitted the worksheet.Methods – Students attended two library instruction sessions. The first session introduced participants to basic Boolean searching (using AND only, selecting appropriate keywords and searching for books in the library catalogue. In the second library session, students were handed an evaluation worksheet and, with no introduction to the process of searching article databases, were asked to find relevant articles on a research topic of their own choosing using both a federated search tool and a single multidisciplinary database. The evaluation worksheet was divided into four sections: step-by-step instructions for accessing the single multidisciplinary database and the federated search tool; space to record search strings in both resources; space to record the titles of up to five relevant articles; and a series of quantitative and qualitative questions regarding ease-of-use, relevancy of results, overall preference (if any between the two resources, likeliness of future use and other preferred research tools. Half of the participants received a worksheet with instructions to search the federated search tool before the single database; the order was reversed for the other half of the students. The evaluation worksheet was designed to be completed in one hour.Participant responses to qualitative questions were analyzed, codified and grouped into thematic categories. If a student mentioned more than one factor in responding to a question, their response was recorded in multiple categories.Main Results

  9. The LHCb configuration database

    CERN Document Server

    Abadie, L; Van Herwijnen, Eric; Jacobsson, R; Jost, B; Neufeld, N

    2005-01-01

    The aim of the LHCb configuration database is to store information about all the controllable devices of the detector. The experiment's control system (that uses PVSS ) will configure, start up and monitor the detector from the information in the configuration database. The database will contain devices with their properties, connectivity and hierarchy. The ability to store and rapidly retrieve huge amounts of data, and the navigability between devices are important requirements. We have collected use cases to ensure the completeness of the design. Using the entity relationship modelling technique we describe the use cases as classes with attributes and links. We designed the schema for the tables using relational diagrams. This methodology has been applied to the TFC (switches) and DAQ system. Other parts of the detector will follow later. The database has been implemented using Oracle to benefit from central CERN database support. The project also foresees the creation of tools to populate, maintain, and co...

  10. The Characterization Tool: A knowledge-based stem cell, differentiated cell, and tissue database with a web-based analysis front-end.

    NARCIS (Netherlands)

    I. Wohlers (Inken); H. Stachelscheid; J. Borstlap; K. Zeilinger; J.C. Gerlach

    2009-01-01

    htmlabstractIn the rapidly growing field of stem cell research, there is a need for universal databases and web-based applications that provide a common knowledge base on the characteristics of stem cells, differentiated cells, and tissues by collecting, processing, and making available diverse

  11. The power tool

    International Nuclear Information System (INIS)

    HAYFIELD, J.P.

    1999-01-01

    POWER Tool--Planning, Optimization, Waste Estimating and Resourcing tool, a hand-held field estimating unit and relational database software tool for optimizing disassembly and final waste form of contaminated systems and equipment

  12. Database of tsunami scenario simulations for Western Iberia: a tool for the TRIDEC Project Decision Support System for tsunami early warning

    Science.gov (United States)

    Armigliato, Alberto; Pagnoni, Gianluca; Zaniboni, Filippo; Tinti, Stefano

    2013-04-01

    TRIDEC is a EU-FP7 Project whose main goal is, in general terms, to develop suitable strategies for the management of crises possibly arising in the Earth management field. The general paradigms adopted by TRIDEC to develop those strategies include intelligent information management, the capability of managing dynamically increasing volumes and dimensionality of information in complex events, and collaborative decision making in systems that are typically very loosely coupled. The two areas where TRIDEC applies and tests its strategies are tsunami early warning and industrial subsurface development. In the field of tsunami early warning, TRIDEC aims at developing a Decision Support System (DSS) that integrates 1) a set of seismic, geodetic and marine sensors devoted to the detection and characterisation of possible tsunamigenic sources and to monitoring the time and space evolution of the generated tsunami, 2) large-volume databases of pre-computed numerical tsunami scenarios, 3) a proper overall system architecture. Two test areas are dealt with in TRIDEC: the western Iberian margin and the eastern Mediterranean. In this study, we focus on the western Iberian margin with special emphasis on the Portuguese coasts. The strategy adopted in TRIDEC plans to populate two different databases, called "Virtual Scenario Database" (VSDB) and "Matching Scenario Database" (MSDB), both of which deal only with earthquake-generated tsunamis. In the VSDB we simulate numerically few large-magnitude events generated by the major known tectonic structures in the study area. Heterogeneous slip distributions on the earthquake faults are introduced to simulate events as "realistically" as possible. The members of the VSDB represent the unknowns that the TRIDEC platform must be able to recognise and match during the early crisis management phase. On the other hand, the MSDB contains a very large number (order of thousands) of tsunami simulations performed starting from many different

  13. Specialist Bibliographic Databases.

    Science.gov (United States)

    Gasparyan, Armen Yuri; Yessirkepov, Marlen; Voronov, Alexander A; Trukhachev, Vladimir I; Kostyukova, Elena I; Gerasimov, Alexey N; Kitas, George D

    2016-05-01

    Specialist bibliographic databases offer essential online tools for researchers and authors who work on specific subjects and perform comprehensive and systematic syntheses of evidence. This article presents examples of the established specialist databases, which may be of interest to those engaged in multidisciplinary science communication. Access to most specialist databases is through subscription schemes and membership in professional associations. Several aggregators of information and database vendors, such as EBSCOhost and ProQuest, facilitate advanced searches supported by specialist keyword thesauri. Searches of items through specialist databases are complementary to those through multidisciplinary research platforms, such as PubMed, Web of Science, and Google Scholar. Familiarizing with the functional characteristics of biomedical and nonbiomedical bibliographic search tools is mandatory for researchers, authors, editors, and publishers. The database users are offered updates of the indexed journal lists, abstracts, author profiles, and links to other metadata. Editors and publishers may find particularly useful source selection criteria and apply for coverage of their peer-reviewed journals and grey literature sources. These criteria are aimed at accepting relevant sources with established editorial policies and quality controls.

  14. Specialist Bibliographic Databases

    Science.gov (United States)

    2016-01-01

    Specialist bibliographic databases offer essential online tools for researchers and authors who work on specific subjects and perform comprehensive and systematic syntheses of evidence. This article presents examples of the established specialist databases, which may be of interest to those engaged in multidisciplinary science communication. Access to most specialist databases is through subscription schemes and membership in professional associations. Several aggregators of information and database vendors, such as EBSCOhost and ProQuest, facilitate advanced searches supported by specialist keyword thesauri. Searches of items through specialist databases are complementary to those through multidisciplinary research platforms, such as PubMed, Web of Science, and Google Scholar. Familiarizing with the functional characteristics of biomedical and nonbiomedical bibliographic search tools is mandatory for researchers, authors, editors, and publishers. The database users are offered updates of the indexed journal lists, abstracts, author profiles, and links to other metadata. Editors and publishers may find particularly useful source selection criteria and apply for coverage of their peer-reviewed journals and grey literature sources. These criteria are aimed at accepting relevant sources with established editorial policies and quality controls. PMID:27134485

  15. International Society of Human and Animal Mycology (ISHAM)-ITS reference DNA barcoding database--the quality controlled standard tool for routine identification of human and animal pathogenic fungi.

    Science.gov (United States)

    Irinyi, Laszlo; Serena, Carolina; Garcia-Hermoso, Dea; Arabatzis, Michael; Desnos-Ollivier, Marie; Vu, Duong; Cardinali, Gianluigi; Arthur, Ian; Normand, Anne-Cécile; Giraldo, Alejandra; da Cunha, Keith Cassia; Sandoval-Denis, Marcelo; Hendrickx, Marijke; Nishikaku, Angela Satie; de Azevedo Melo, Analy Salles; Merseguel, Karina Bellinghausen; Khan, Aziza; Parente Rocha, Juliana Alves; Sampaio, Paula; da Silva Briones, Marcelo Ribeiro; e Ferreira, Renata Carmona; de Medeiros Muniz, Mauro; Castañón-Olivares, Laura Rosio; Estrada-Barcenas, Daniel; Cassagne, Carole; Mary, Charles; Duan, Shu Yao; Kong, Fanrong; Sun, Annie Ying; Zeng, Xianyu; Zhao, Zuotao; Gantois, Nausicaa; Botterel, Françoise; Robbertse, Barbara; Schoch, Conrad; Gams, Walter; Ellis, David; Halliday, Catriona; Chen, Sharon; Sorrell, Tania C; Piarroux, Renaud; Colombo, Arnaldo L; Pais, Célia; de Hoog, Sybren; Zancopé-Oliveira, Rosely Maria; Taylor, Maria Lucia; Toriello, Conchita; de Almeida Soares, Célia Maria; Delhaes, Laurence; Stubbe, Dirk; Dromer, Françoise; Ranque, Stéphane; Guarro, Josep; Cano-Lira, Jose F; Robert, Vincent; Velegraki, Aristea; Meyer, Wieland

    2015-05-01

    Human and animal fungal pathogens are a growing threat worldwide leading to emerging infections and creating new risks for established ones. There is a growing need for a rapid and accurate identification of pathogens to enable early diagnosis and targeted antifungal therapy. Morphological and biochemical identification methods are time-consuming and require trained experts. Alternatively, molecular methods, such as DNA barcoding, a powerful and easy tool for rapid monophasic identification, offer a practical approach for species identification and less demanding in terms of taxonomical expertise. However, its wide-spread use is still limited by a lack of quality-controlled reference databases and the evolving recognition and definition of new fungal species/complexes. An international consortium of medical mycology laboratories was formed aiming to establish a quality controlled ITS database under the umbrella of the ISHAM working group on "DNA barcoding of human and animal pathogenic fungi." A new database, containing 2800 ITS sequences representing 421 fungal species, providing the medical community with a freely accessible tool at http://www.isham.org/ and http://its.mycologylab.org/ to rapidly and reliably identify most agents of mycoses, was established. The generated sequences included in the new database were used to evaluate the variation and overall utility of the ITS region for the identification of pathogenic fungi at intra-and interspecies level. The average intraspecies variation ranged from 0 to 2.25%. This highlighted selected pathogenic fungal species, such as the dermatophytes and emerging yeast, for which additional molecular methods/genetic markers are required for their reliable identification from clinical and veterinary specimens. © The Author 2015. Published by Oxford University Press on behalf of The International Society for Human and Animal Mycology. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  16. 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

  17. 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...

  18. The CAPEC Database

    DEFF Research Database (Denmark)

    Nielsen, Thomas Lund; Abildskov, Jens; Harper, Peter Mathias

    2001-01-01

    in the compound. This classification makes the CAPEC database a very useful tool, for example, in the development of new property models, since properties of chemically similar compounds are easily obtained. A program with efficient search and retrieval functions of properties has been developed.......The Computer-Aided Process Engineering Center (CAPEC) database of measured data was established with the aim to promote greater data exchange in the chemical engineering community. The target properties are pure component properties, mixture properties, and special drug solubility data....... The database divides pure component properties into primary, secondary, and functional properties. Mixture properties are categorized in terms of the number of components in the mixture and the number of phases present. The compounds in the database have been classified on the basis of the functional groups...

  19. Danish Urogynaecological Database

    DEFF Research Database (Denmark)

    Hansen, Ulla Darling; Gradel, Kim Oren; Larsen, Michael Due

    2016-01-01

    , complications if relevant, implants used if relevant, 3-6-month postoperative recording of symptoms, if any. A set of clinical quality indicators is being maintained by the steering committee for the database and is published in an annual report which also contains extensive descriptive statistics. The database......The Danish Urogynaecological Database is established in order to ensure high quality of treatment for patients undergoing urogynecological surgery. The database contains details of all women in Denmark undergoing incontinence surgery or pelvic organ prolapse surgery amounting to ~5,200 procedures...... has a completeness of over 90% of all urogynecological surgeries performed in Denmark. Some of the main variables have been validated using medical records as gold standard. The positive predictive value was above 90%. The data are used as a quality monitoring tool by the hospitals and in a number...

  20. Brasilia’s Database Administrators

    Directory of Open Access Journals (Sweden)

    Jane Adriana

    2016-06-01

    Full Text Available Database administration has gained an essential role in the management of new database technologies. Different data models are being created for supporting the enormous data volume, from the traditional relational database. These new models are called NoSQL (Not only SQL databases. The adoption of best practices and procedures, has become essential for the operation of database management systems. Thus, this paper investigates some of the techniques and tools used by database administrators. The study highlights features and particularities in databases within the area of Brasilia, the Capital of Brazil. The results point to which new technologies regarding database management are currently the most relevant, as well as the central issues in this area.

  1. 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...

  2. 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...

  3. Dealer Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The dealer reporting databases contain the primary data reported by federally permitted seafood dealers in the northeast. Electronic reporting was implemented May 1,...

  4. National database

    DEFF Research Database (Denmark)

    Kristensen, Helen Grundtvig; Stjernø, Henrik

    1995-01-01

    Artikel om national database for sygeplejeforskning oprettet på Dansk Institut for Sundheds- og Sygeplejeforskning. Det er målet med databasen at samle viden om forsknings- og udviklingsaktiviteter inden for sygeplejen.......Artikel om national database for sygeplejeforskning oprettet på Dansk Institut for Sundheds- og Sygeplejeforskning. Det er målet med databasen at samle viden om forsknings- og udviklingsaktiviteter inden for sygeplejen....

  5. MaGa, a web-based collaborative database for gas emissions: a tool to improve the knowledge on Earth degassing

    Science.gov (United States)

    Frigeri, A.; Cardellini, C.; Chiodini, G.; Frondini, F.; Bagnato, E.; Aiuppa, A.; Fischer, T. P.; Lehnert, K. A.

    2014-12-01

    The study of the main pathways of carbon flux from the deep Earth requires the analysis of a large quantity and variety of data on volcanic and non-volcanic gas emissions. Hence, there is need for common frameworks to aggregate available data and insert new observations. Since 2010 we have been developing the Mapping Gas emissions (MaGa) web-based database to collect data on carbon degassing form volcanic and non-volcanic environments. MaGa uses an Object-relational model, translating the experience of field surveyors into the database schema. The current web interface of MaGa allows users to browse the data in tabular format or by browsing an interactive web-map. Enabled users can insert information as measurement methods, instrument details as well as the actual values collected in the field. Measurements found in the literature can be inserted as well as direct field observations made by human-operated instruments. Currently the database includes fluxes and gas compositions from active craters degassing, diffuse soil degassing and fumaroles both from dormant volcanoes and open-vent volcanoes from literature survey and data about non-volcanic emission of the Italian territory. Currently, MaGa holds more than 1000 volcanic plume degassing fluxes, data from 30 sites of diffuse soil degassing from italian volcanoes, and about 60 measurements from fumarolic and non volcanic emission sites. For each gas emission site, the MaGa holds data, pictures, descriptions on gas sampling, analysis and measurement methods, together with bibliographic references and contacts to researchers having experience on each site. From 2012, MaGa developments started to be focused towards the framework of the Deep Earth Carbon Degassing research initiative of the Deep Carbon Observatory. Whithin the DECADE initiative, there are others data systems, as EarthChem and the Smithsonian Institution's Global Volcanism Program. An interoperable interaction between the DECADE data systems is being

  6. Comprehensive comparison of in silico MS/MS fragmentation tools of the CASMI contest: database boosting is needed to achieve 93% accuracy.

    Science.gov (United States)

    Blaženović, Ivana; Kind, Tobias; Torbašinović, Hrvoje; Obrenović, Slobodan; Mehta, Sajjan S; Tsugawa, Hiroshi; Wermuth, Tobias; Schauer, Nicolas; Jahn, Martina; Biedendieck, Rebekka; Jahn, Dieter; Fiehn, Oliver

    2017-05-25

    In mass spectrometry-based untargeted metabolomics, rarely more than 30% of the compounds are identified. Without the true identity of these molecules it is impossible to draw conclusions about the biological mechanisms, pathway relationships and provenance of compounds. The only way at present to address this discrepancy is to use in silico fragmentation software to identify unknown compounds by comparing and ranking theoretical MS/MS fragmentations from target structures to experimental tandem mass spectra (MS/MS). We compared the performance of four publicly available in silico fragmentation algorithms (MetFragCL, CFM-ID, MAGMa+ and MS-FINDER) that participated in the 2016 CASMI challenge. We found that optimizing the use of metadata, weighting factors and the manner of combining different tools eventually defined the ultimate outcomes of each method. We comprehensively analysed how outcomes of different tools could be combined and reached a final success rate of 93% for the training data, and 87% for the challenge data, using a combination of MAGMa+, CFM-ID and compound importance information along with MS/MS matching. Matching MS/MS spectra against the MS/MS libraries without using any in silico tool yielded 60% correct hits, showing that the use of in silico methods is still important.

  7. SpirPro: A Spirulina proteome database and web-based tools for the analysis of protein-protein interactions at the metabolic level in Spirulina (Arthrospira) platensis C1.

    Science.gov (United States)

    Senachak, Jittisak; Cheevadhanarak, Supapon; Hongsthong, Apiradee

    2015-07-29

    Spirulina (Arthrospira) platensis is the only cyanobacterium that in addition to being studied at the molecular level and subjected to gene manipulation, can also be mass cultivated in outdoor ponds for commercial use as a food supplement. Thus, encountering environmental changes, including temperature stresses, is common during the mass production of Spirulina. The use of cyanobacteria as an experimental platform, especially for photosynthetic gene manipulation in plants and bacteria, is becoming increasingly important. Understanding the mechanisms and protein-protein interaction networks that underlie low- and high-temperature responses is relevant to Spirulina mass production. To accomplish this goal, high-throughput techniques such as OMICs analyses are used. Thus, large datasets must be collected, managed and subjected to information extraction. Therefore, databases including (i) proteomic analysis and protein-protein interaction (PPI) data and (ii) domain/motif visualization tools are required for potential use in temperature response models for plant chloroplasts and photosynthetic bacteria. A web-based repository was developed including an embedded database, SpirPro, and tools for network visualization. Proteome data were analyzed integrated with protein-protein interactions and/or metabolic pathways from KEGG. The repository provides various information, ranging from raw data (2D-gel images) to associated results, such as data from interaction and/or pathway analyses. This integration allows in silico analyses of protein-protein interactions affected at the metabolic level and, particularly, analyses of interactions between and within the affected metabolic pathways under temperature stresses for comparative proteomic analysis. The developed tool, which is coded in HTML with CSS/JavaScript and depicted in Scalable Vector Graphics (SVG), is designed for interactive analysis and exploration of the constructed network. SpirPro is publicly available on the web

  8. ADANS database specification

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1997-01-16

    The purpose of the Air Mobility Command (AMC) Deployment Analysis System (ADANS) Database Specification (DS) is to describe the database organization and storage allocation and to provide the detailed data model of the physical design and information necessary for the construction of the parts of the database (e.g., tables, indexes, rules, defaults). The DS includes entity relationship diagrams, table and field definitions, reports on other database objects, and a description of the ADANS data dictionary. ADANS is the automated system used by Headquarters AMC and the Tanker Airlift Control Center (TACC) for airlift planning and scheduling of peacetime and contingency operations as well as for deliberate planning. ADANS also supports planning and scheduling of Air Refueling Events by the TACC and the unit-level tanker schedulers. ADANS receives input in the form of movement requirements and air refueling requests. It provides a suite of tools for planners to manipulate these requirements/requests against mobility assets and to develop, analyze, and distribute schedules. Analysis tools are provided for assessing the products of the scheduling subsystems, and editing capabilities support the refinement of schedules. A reporting capability provides formatted screen, print, and/or file outputs of various standard reports. An interface subsystem handles message traffic to and from external systems. The database is an integral part of the functionality summarized above.

  9. Database for propagation models

    Science.gov (United States)

    Kantak, Anil V.

    1991-07-01

    A propagation researcher or a systems engineer who intends to use the results of a propagation experiment is generally faced with various database tasks such as the selection of the computer software, the hardware, and the writing of the programs to pass the data through the models of interest. This task is repeated every time a new experiment is conducted or the same experiment is carried out at a different location generating different data. Thus the users of this data have to spend a considerable portion of their time learning how to implement the computer hardware and the software towards the desired end. This situation may be facilitated considerably if an easily accessible propagation database is created that has all the accepted (standardized) propagation phenomena models approved by the propagation research community. Also, the handling of data will become easier for the user. Such a database construction can only stimulate the growth of the propagation research it if is available to all the researchers, so that the results of the experiment conducted by one researcher can be examined independently by another, without different hardware and software being used. The database may be made flexible so that the researchers need not be confined only to the contents of the database. Another way in which the database may help the researchers is by the fact that they will not have to document the software and hardware tools used in their research since the propagation research community will know the database already. The following sections show a possible database construction, as well as properties of the database for the propagation research.

  10. Developments in diffraction databases

    International Nuclear Information System (INIS)

    Jenkins, R.

    1999-01-01

    Full text: There are a number of databases available to the diffraction community. Two of the more important of these are the Powder Diffraction File (PDF) maintained by the International Centre for Diffraction Data (ICDD), and the Inorganic Crystal Structure Database (ICSD) maintained by Fachsinformationzentrum (FIZ, Karlsruhe). In application, the PDF has been used as an indispensable tool in phase identification and identification of unknowns. The ICSD database has extensive and explicit reference to the structures of compounds: atomic coordinates, space group and even thermal vibration parameters. A similar database, but for organic compounds, is maintained by the Cambridge Crystallographic Data Centre. These databases are often used as independent sources of information. However, little thought has been given on how to exploit the combined properties of structural database tools. A recently completed agreement between ICDD and FIZ, plus ICDD and Cambridge, provides a first step in complementary use of the PDF and the ICSD databases. The focus of this paper (as indicated below) is to examine ways of exploiting the combined properties of both databases. In 1996, there were approximately 76,000 entries in the PDF and approximately 43,000 entries in the ICSD database. The ICSD database has now been used to calculate entries in the PDF. Thus, to derive d-spacing and peak intensity data requires the synthesis of full diffraction patterns, i.e., we use the structural data in the ICSD database and then add instrumental resolution information. The combined data from PDF and ICSD can be effectively used in many ways. For example, we can calculate PDF data for an ideally random crystal distribution and also in the absence of preferred orientation. Again, we can use systematic studies of intermediate members in solid solutions series to help produce reliable quantitative phase analyses. In some cases, we can study how solid solution properties vary with composition and

  11. COMPARISON OF POPULAR BIOINFORMATICS DATABASES

    OpenAIRE

    Abdulganiyu Abdu Yusuf; Zahraddeen Sufyanu; Kabir Yusuf Mamman; Abubakar Umar Suleiman

    2016-01-01

    Bioinformatics is the application of computational tools to capture and interpret biological data. It has wide applications in drug development, crop improvement, agricultural biotechnology and forensic DNA analysis. There are various databases available to researchers in bioinformatics. These databases are customized for a specific need and are ranged in size, scope, and purpose. The main drawbacks of bioinformatics databases include redundant information, constant change, data spread over m...

  12. 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.

  13. Toward automating the database design process

    International Nuclear Information System (INIS)

    Asprey, P.L.

    1979-01-01

    One organization's approach to designing complex, interrelated databases is described. The problems encountered and the techniques developed are discussed. A set of software tools to aid the designer and to produce an initial database design directly is presented. 5 figures

  14. The CATH database

    Directory of Open Access Journals (Sweden)

    Knudsen Michael

    2010-02-01

    Full Text Available Abstract The CATH database provides hierarchical classification of protein domains based on their folding patterns. Domains are obtained from protein structures deposited in the Protein Data Bank and both domain identification and subsequent classification use manual as well as automated procedures. The accompanying website http://www.cathdb.info provides an easy-to-use entry to the classification, allowing for both browsing and downloading of data. Here, we give a brief review of the database, its corresponding website and some related tools.

  15. Are we safe? A tool to improve the knowledge of the risk areas: high-resolution floods database (MEDIFLOOD) for Spanish Mediterranean coast (1960 -2014)

    Science.gov (United States)

    Gil-Guirado, Salvador; Perez-Morales, Alfredo; Lopez-Martinez, Francisco; Barriendos-Vallve, Mariano

    2016-04-01

    The Mediterranean coast of the Iberian Peninsula concentrates an important part of the population and economic activities in Spain. Intensive agriculture, industry in the major urban centers, trade and tourism make this region the main center of economic dynamism and one of the highest rates of population and economic growth of southern Europe. This process accelerated after Franco regime started to be more open to the outside in the early sixties of the last century. The main responsible factor for this process is the climate because of warmer temperatures and a large number of sunny days, which has become in the economic slogan of the area. However, this growth process has happened without proper planning to reduce the impact of other climatic feature of the area, floods. Floods are the natural hazard that generates greater impacts in the area.One of the factors that facilitate the lack of strategic planning is the absence of a correct chronology of flood episodes. In this situation, land use plans, are based on inadequate chronologies that do not report the real risk of the population of this area. To reduce this deficit and contribute to a more efficient zoning of the Mediterranean coast according to their floods risk, we have prepared a high-resolution floods database (MEDIFLOOD) for all the municipalities of the Spanish Mediterranean coast since 1960 until 2013. The methodology consists on exploring the newspaper archives of all newspapers with a presence in the area. The searches have been made by typing the name of each of the 180 municipalities of the Spanish coast followed by 5 key terms. Each identified flood has been classified by dates and according to their level of intensity and type of damage. Additionally, we have consulted the specific bibliography to rule out any data gaps. The results are surprising and worrying. We have identified more than 3,600 cases where a municipality has been affected by floods. These cases are grouped into more than 700

  16. The AMMA database

    Science.gov (United States)

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

    2010-05-01

    The AMMA project includes aircraft, ground-based and ocean measurements, an intensive use of satellite data and diverse modelling studies. Therefore, the AMMA database aims at storing a great amount and a large variety of data, and at providing the data as rapidly and safely as possible to the AMMA research community. In order to stimulate the exchange of information and collaboration between researchers from different disciplines or using different tools, the database provides a detailed description of the products and uses standardized formats. The AMMA database contains: - AMMA field campaigns datasets; - historical data in West Africa from 1850 (operational networks and previous scientific programs); - satellite products from past and future satellites, (re-)mapped on a regular latitude/longitude grid and stored in NetCDF format (CF Convention); - model outputs from atmosphere or ocean operational (re-)analysis and forecasts, and from research simulations. The outputs are processed as the satellite products are. Before accessing the data, any user has to sign the AMMA data and publication policy. This chart only covers the use of data in the framework of scientific objectives and categorically excludes the redistribution of data to third parties and the usage for commercial applications. Some collaboration between data producers and users, and the mention of the AMMA project in any publication is also required. The AMMA database and the associated on-line tools have been fully developed and are managed by two teams in France (IPSL Database Centre, Paris and OMP, Toulouse). Users can access data of both data centres using an unique web portal. This website is composed of different modules : - Registration: forms to register, read and sign the data use chart when an user visits for the first time - Data access interface: friendly tool allowing to build a data extraction request by selecting various criteria like location, time, parameters... The request can

  17. RODOS database adapter

    International Nuclear Information System (INIS)

    Xie Gang

    1995-11-01

    Integrated data management is an essential aspect of many automatical information systems such as RODOS, a real-time on-line decision support system for nuclear emergency management. In particular, the application software must provide access management to different commercial database systems. This report presents the tools necessary for adapting embedded SQL-applications to both HP-ALLBASE/SQL and CA-Ingres/SQL databases. The design of the database adapter and the concept of RODOS embedded SQL syntax are discussed by considering some of the most important features of SQL-functions and the identification of significant differences between SQL-implementations. Finally fully part of the software developed and the administrator's and installation guides are described. (orig.) [de

  18. Nuclear database management systems

    International Nuclear Information System (INIS)

    Stone, C.; Sutton, R.

    1996-01-01

    The authors are developing software tools for accessing and visualizing nuclear data. MacNuclide was the first software application produced by their group. This application incorporates novel database management and visualization tools into an intuitive interface. The nuclide chart is used to access properties and to display results of searches. Selecting a nuclide in the chart displays a level scheme with tables of basic, radioactive decay, and other properties. All level schemes are interactive, allowing the user to modify the display, move between nuclides, and display entire daughter decay chains

  19. The Danish Sarcoma Database

    Directory of Open Access Journals (Sweden)

    Jorgensen PH

    2016-10-01

    Full Text Available Peter Holmberg Jørgensen,1 Gunnar Schwarz Lausten,2 Alma B Pedersen3 1Tumor Section, Department of Orthopedic Surgery, Aarhus University Hospital, Aarhus, 2Tumor Section, Department of Orthopedic Surgery, Rigshospitalet, Copenhagen, 3Department of Clinical Epidemiology, Aarhus University Hospital, Aarhus, Denmark Aim: The aim of the database is to gather information about sarcomas treated in Denmark in order to continuously monitor and improve the quality of sarcoma treatment in a local, a national, and an international perspective. Study population: Patients in Denmark diagnosed with a sarcoma, both skeletal and ekstraskeletal, are to be registered since 2009. Main variables: The database contains information about appearance of symptoms; date of receiving referral to a sarcoma center; date of first visit; whether surgery has been performed elsewhere before referral, diagnosis, and treatment; tumor characteristics such as location, size, malignancy grade, and growth pattern; details on treatment (kind of surgery, amount of radiation therapy, type and duration of chemotherapy; complications of treatment; local recurrence and metastases; and comorbidity. In addition, several quality indicators are registered in order to measure the quality of care provided by the hospitals and make comparisons between hospitals and with international standards. Descriptive data: Demographic patient-specific data such as age, sex, region of living, comorbidity, World Health Organization's International Classification of Diseases – tenth edition codes and TNM Classification of Malignant Tumours, and date of death (after yearly coupling to the Danish Civil Registration System. Data quality and completeness are currently secured. Conclusion: The Danish Sarcoma Database is population based and includes sarcomas occurring in Denmark since 2009. It is a valuable tool for monitoring sarcoma incidence and quality of treatment and its improvement, postoperative

  20. Real Time Baseball Database

    Science.gov (United States)

    Fukue, Yasuhiro

    The author describes the system outline, features and operations of "Nikkan Sports Realtime Basaball Database" which was developed and operated by Nikkan Sports Shimbun, K. K. The system enables to input numerical data of professional baseball games as they proceed simultaneously, and execute data updating at realtime, just-in-time. Other than serving as supporting tool for prepareing newspapers it is also available for broadcasting media, general users through NTT dial Q2 and others.

  1. Using the genome aggregation database, computational pathogenicity prediction tools, and patch clamp heterologous expression studies to demote previously published long QT syndrome type 1 mutations from pathogenic to benign.

    Science.gov (United States)

    Clemens, Daniel J; Lentino, Anne R; Kapplinger, Jamie D; Ye, Dan; Zhou, Wei; Tester, David J; Ackerman, Michael J

    2018-04-01

    Mutations in the KCNQ1-encoded Kv7.1 potassium channel cause long QT syndrome (LQTS) type 1 (LQT1). It has been suggested that ∼10%-20% of rare LQTS case-derived variants in the literature may have been published erroneously as LQT1-causative mutations and may be "false positives." The purpose of this study was to determine which previously published KCNQ1 case variants are likely false positives. A list of all published, case-derived KCNQ1 missense variants (MVs) was compiled. The occurrence of each MV within the Genome Aggregation Database (gnomAD) was assessed. Eight in silico tools were used to predict each variant's pathogenicity. Case-derived variants that were either (1) too frequently found in gnomAD or (2) absent in gnomAD but predicted to be pathogenic by ≤2 tools were considered potential false positives. Three of these variants were characterized functionally using whole-cell patch clamp technique. Overall, there were 244 KCNQ1 case-derived MVs. Of these, 29 (12%) were seen in ≥10 individuals in gnomAD and are demotable. However, 157 of 244 MVs (64%) were absent in gnomAD. Of these, 7 (4%) were predicted to be pathogenic by ≤2 tools, 3 of which we characterized functionally. There was no significant difference in current density between heterozygous KCNQ1-F127L, -P477L, or -L619M variant-containing channels compared to KCNQ1-WT. This study offers preliminary evidence for the demotion of 32 (13%) previously published LQT1 MVs. Of these, 29 were demoted because of their frequent sighting in gnomAD. Additionally, in silico analysis and in vitro functional studies have facilitated the demotion of 3 ultra-rare MVs (F127L, P477L, L619M). Copyright © 2017 Heart Rhythm Society. Published by Elsevier Inc. All rights reserved.

  2. The Neotoma Paleoecology Database

    Science.gov (United States)

    Grimm, E. C.; Ashworth, A. C.; Barnosky, A. D.; Betancourt, J. L.; Bills, B.; Booth, R.; Blois, J.; Charles, D. F.; Graham, R. W.; Goring, S. J.; Hausmann, S.; Smith, A. J.; Williams, J. W.; Buckland, P.

    2015-12-01

    The Neotoma Paleoecology Database (www.neotomadb.org) is a multiproxy, open-access, relational database that includes fossil data for the past 5 million years (the late Neogene and Quaternary Periods). Modern distributional data for various organisms are also being made available for calibration and paleoecological analyses. The project is a collaborative effort among individuals from more than 20 institutions worldwide, including domain scientists representing a spectrum of Pliocene-Quaternary fossil data types, as well as experts in information technology. Working groups are active for diatoms, insects, ostracodes, pollen and plant macroscopic remains, testate amoebae, rodent middens, vertebrates, age models, geochemistry and taphonomy. Groups are also active in developing online tools for data analyses and for developing modules for teaching at different levels. A key design concept of NeotomaDB is that stewards for various data types are able to remotely upload and manage data. Cooperatives for different kinds of paleo data, or from different regions, can appoint their own stewards. Over the past year, much progress has been made on development of the steward software-interface that will enable this capability. The steward interface uses web services that provide access to the database. More generally, these web services enable remote programmatic access to the database, which both desktop and web applications can use and which provide real-time access to the most current data. Use of these services can alleviate the need to download the entire database, which can be out-of-date as soon as new data are entered. In general, the Neotoma web services deliver data either from an entire table or from the results of a view. Upon request, new web services can be quickly generated. Future developments will likely expand the spatial and temporal dimensions of the database. NeotomaDB is open to receiving new datasets and stewards from the global Quaternary community

  3. NNDC database migration project

    Energy Technology Data Exchange (ETDEWEB)

    Burrows, Thomas W; Dunford, Charles L [U.S. Department of Energy, Brookhaven Science Associates (United States)

    2004-03-01

    NNDC Database Migration was necessary to replace obsolete hardware and software, to be compatible with the industry standard in relational databases (mature software, large base of supporting software for administration and dissemination and replication and synchronization tools) and to improve the user access in terms of interface and speed. The Relational Database Management System (RDBMS) consists of a Sybase Adaptive Server Enterprise (ASE), which is relatively easy to move between different RDB systems (e.g., MySQL, MS SQL-Server, or MS Access), the Structured Query Language (SQL) and administrative tools written in Java. Linux or UNIX platforms can be used. The existing ENSDF datasets are often VERY large and will need to be reworked and both the CRP (adopted) and CRP (Budapest) datasets give elemental cross sections (not relative I{gamma}) in the RI field (so it is not immediately obvious which of the old values has been changed). But primary and secondary intensities are now available on the same scale. The intensity normalization has been done for us. We will gain access to a large volume of data from Budapest and some of those gamma-ray intensity and energy data will be superior to what we already have.

  4. 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...

  5. LHCb distributed conditions database

    International Nuclear Information System (INIS)

    Clemencic, M

    2008-01-01

    The LHCb Conditions Database project provides the necessary tools to handle non-event time-varying data. The main users of conditions are reconstruction and analysis processes, which are running on the Grid. To allow efficient access to the data, we need to use a synchronized replica of the content of the database located at the same site as the event data file, i.e. the LHCb Tier1. The replica to be accessed is selected from information stored on LFC (LCG File Catalog) and managed with the interface provided by the LCG developed library CORAL. The plan to limit the submission of jobs to those sites where the required conditions are available will also be presented. LHCb applications are using the Conditions Database framework on a production basis since March 2007. We have been able to collect statistics on the performance and effectiveness of both the LCG library COOL (the library providing conditions handling functionalities) and the distribution framework itself. Stress tests on the CNAF hosted replica of the Conditions Database have been performed and the results will be summarized here

  6. Database on wind characteristics

    Energy Technology Data Exchange (ETDEWEB)

    Hansen, K.S. [The Technical Univ. of Denmark (Denmark); Courtney, M.S. [Risoe National Lab., (Denmark)

    1999-08-01

    The organisations that participated in the project consists of five research organisations: MIUU (Sweden), ECN (The Netherlands), CRES (Greece), DTU (Denmark), Risoe (Denmark) and one wind turbine manufacturer: Vestas Wind System A/S (Denmark). The overall goal was to build a database consisting of a large number of wind speed time series and create tools for efficiently searching through the data to select interesting data. The project resulted in a database located at DTU, Denmark with online access through the Internet. The database contains more than 50.000 hours of measured wind speed measurements. A wide range of wind climates and terrain types are represented with significant amounts of time series. Data have been chosen selectively with a deliberate over-representation of high wind and complex terrain cases. This makes the database ideal for wind turbine design needs but completely unsuitable for resource studies. Diversity has also been an important aim and this is realised with data from a large range of terrain types; everything from offshore to mountain, from Norway to Greece. (EHS)

  7. A Simulation Tool for Distributed Databases.

    Science.gov (United States)

    1981-09-01

    11-8 . Reed’s multiversion system [RE1T8] may also be viewed aa updating only copies until the commit is made. The decision to make the changes...distributed voting, and Ellis’ ring algorithm. Other, significantly different algorithms not covered in his work include Reed’s multiversion algorithm, the

  8. The Matti Kuusi International Database of Proverbs

    Directory of Open Access Journals (Sweden)

    Outi Lauhakangas

    2013-10-01

    Full Text Available Based on Matti Kuusi’s library of proverb collections, the Matti Kuusi International Database of Proverbs is designed for cultural researchers, translators, and proverb enthusiasts. Kuusi compiled a card-index with tens of thousands of references to synonymic proverbs. The database is a tool for studying global similarities and national specificities of proverbs. This essay offers a practical introduction to the database, its classification system, and describes future plans for improvement of the database.

  9. An Integrated Molecular Database on Indian Insects.

    Science.gov (United States)

    Pratheepa, Maria; Venkatesan, Thiruvengadam; Gracy, Gandhi; Jalali, Sushil Kumar; Rangheswaran, Rajagopal; Antony, Jomin Cruz; Rai, Anil

    2018-01-01

    MOlecular Database on Indian Insects (MODII) is an online database linking several databases like Insect Pest Info, Insect Barcode Information System (IBIn), Insect Whole Genome sequence, Other Genomic Resources of National Bureau of Agricultural Insect Resources (NBAIR), Whole Genome sequencing of Honey bee viruses, Insecticide resistance gene database and Genomic tools. This database was developed with a holistic approach for collecting information about phenomic and genomic information of agriculturally important insects. This insect resource database is available online for free at http://cib.res.in. http://cib.res.in/.

  10. Database characterisation of HEP applications

    International Nuclear Information System (INIS)

    Piorkowski, Mariusz; Grancher, Eric; Topurov, Anton

    2012-01-01

    Oracle-based database applications underpin many key aspects of operations for both the LHC accelerator and the LHC experiments. In addition to the overall performance, the predictability of the response is a key requirement to ensure smooth operations and delivering predictability requires understanding the applications from the ground up. Fortunately, database management systems provide several tools to check, measure, analyse and gather useful information. We present our experiences characterising the performance of several typical HEP database applications performance characterisations that were used to deliver improved predictability and scalability as well as for optimising the hardware platform choice as we migrated to new hardware and Oracle 11g.

  11. Immune epitope database analysis resource

    DEFF Research Database (Denmark)

    Kim, Yohan; Ponomarenko, Julia; Zhu, Zhanyang

    2012-01-01

    The immune epitope database analysis resource (IEDB-AR: http://tools.iedb.org) is a collection of tools for prediction and analysis of molecular targets of T- and B-cell immune responses (i.e. epitopes). Since its last publication in the NAR webserver issue in 2008, a new generation of peptide......, and the homology mapping tool was updated to enable mapping of discontinuous epitopes onto 3D structures. Furthermore, to serve a wider range of users, the number of ways in which IEDB-AR can be accessed has been expanded. Specifically, the predictive tools can be programmatically accessed using a web interface...

  12. The GLIMS Glacier Database

    Science.gov (United States)

    Raup, B. H.; Khalsa, S. S.; Armstrong, R.

    2007-12-01

    The Global Land Ice Measurements from Space (GLIMS) project has built a geospatial and temporal database of glacier data, composed of glacier outlines and various scalar attributes. These data are being derived primarily from satellite imagery, such as from ASTER and Landsat. Each "snapshot" of a glacier is from a specific time, and the database is designed to store multiple snapshots representative of different times. We have implemented two web-based interfaces to the database; one enables exploration of the data via interactive maps (web map server), while the other allows searches based on text-field constraints. The web map server is an Open Geospatial Consortium (OGC) compliant Web Map Server (WMS) and Web Feature Server (WFS). This means that other web sites can display glacier layers from our site over the Internet, or retrieve glacier features in vector format. All components of the system are implemented using Open Source software: Linux, PostgreSQL, PostGIS (geospatial extensions to the database), MapServer (WMS and WFS), and several supporting components such as Proj.4 (a geographic projection library) and PHP. These tools are robust and provide a flexible and powerful framework for web mapping applications. As a service to the GLIMS community, the database contains metadata on all ASTER imagery acquired over glacierized terrain. Reduced-resolution of the images (browse imagery) can be viewed either as a layer in the MapServer application, or overlaid on the virtual globe within Google Earth. The interactive map application allows the user to constrain by time what data appear on the map. For example, ASTER or glacier outlines from 2002 only, or from Autumn in any year, can be displayed. The system allows users to download their selected glacier data in a choice of formats. The results of a query based on spatial selection (using a mouse) or text-field constraints can be downloaded in any of these formats: ESRI shapefiles, KML (Google Earth), Map

  13. Q-bank phytoplasma database

    DEFF Research Database (Denmark)

    Contaldo, Nicoletta; Bertaccini, Assunta; Nicolaisen, Mogens

    2014-01-01

    The setting of the Q-Bank database free available on line for quarantine phytoplasma and also for general phytoplasma identification is described. The tool was developed in the frame of the EU-FP7 project Qbol and is linked with a new project Q-collect in order to made widely available the identi......The setting of the Q-Bank database free available on line for quarantine phytoplasma and also for general phytoplasma identification is described. The tool was developed in the frame of the EU-FP7 project Qbol and is linked with a new project Q-collect in order to made widely available...

  14. Extending Database Integration Technology

    National Research Council Canada - National Science Library

    Buneman, Peter

    1999-01-01

    Formal approaches to the semantics of databases and database languages can have immediate and practical consequences in extending database integration technologies to include a vastly greater range...

  15. Open Geoscience Database

    Science.gov (United States)

    Bashev, A.

    2012-04-01

    treatment could be conducted in other programs after extraction the filtered data into *.csv file. It makes the database understandable for non-experts. The database employs open data format (*.csv) and wide spread tools: PHP as the program language, MySQL as database management system, JavaScript for interaction with GoogleMaps and JQueryUI for create user interface. The database is multilingual: there are association tables, which connect with elements of the database. In total the development required about 150 hours. The database still has several problems. The main problem is the reliability of the data. Actually it needs an expert system for estimation the reliability, but the elaboration of such a system would take more resources than the database itself. The second problem is the problem of stream selection - how to select the stations that are connected with each other (for example, belong to one water stream) and indicate their sequence. Currently the interface is English and Russian. However it can be easily translated to your language. But some problems we decided. For example problem "the problem of the same station" (sometimes the distance between stations is smaller, than the error of position): when you adding new station to the database our application automatically find station near this place. Also we decided problem of object and parameter type (how to regard "EC" and "electrical conductivity" as the same parameter). This problem has been solved using "associative tables". If you would like to see the interface on your language, just contact us. We should send you the list of terms and phrases for translation on your language. The main advantage of the database is that it is totally open: everybody can see, extract the data from the database and use them for non-commercial purposes with no charge. Registered users can contribute to the database without getting paid. We hope, that it will be widely used first of all for education purposes, but

  16. Farmide rajamiseks tuleb EList Eestisse 170 miljonit krooni / Ain Alvela

    Index Scriptorium Estoniae

    Alvela, Ain, 1967-

    2009-01-01

    12.-26. oktoobrini 2009 saavad loomapidajad esitada Põllumajanduse Registrite ja Informatsiooni Ametile (PRIA) taotlusi investeeringutoetuse saamiseks loomakasvatusehitiste rajamiseks ja neisse vajalike seadmete soetamiseks. Lisa: toetus peab kindlustama konkurentsivõimet

  17. EMU Lessons Learned Database

    Science.gov (United States)

    Matthews, Kevin M., Jr.; Crocker, Lori; Cupples, J. Scott

    2011-01-01

    As manned space exploration takes on the task of traveling beyond low Earth orbit, many problems arise that must be solved in order to make the journey possible. One major task is protecting humans from the harsh space environment. The current method of protecting astronauts during Extravehicular Activity (EVA) is through use of the specially designed Extravehicular Mobility Unit (EMU). As more rigorous EVA conditions need to be endured at new destinations, the suit will need to be tailored and improved in order to accommodate the astronaut. The Objective behind the EMU Lessons Learned Database(LLD) is to be able to create a tool which will assist in the development of next-generation EMUs, along with maintenance and improvement of the current EMU, by compiling data from Failure Investigation and Analysis Reports (FIARs) which have information on past suit failures. FIARs use a system of codes that give more information on the aspects of the failure, but if one is unfamiliar with the EMU they will be unable to decipher the information. A goal of the EMU LLD is to not only compile the information, but to present it in a user-friendly, organized, searchable database accessible to all familiarity levels with the EMU; both newcomers and veterans alike. The EMU LLD originally started as an Excel database, which allowed easy navigation and analysis of the data through pivot charts. Creating an entry requires access to the Problem Reporting And Corrective Action database (PRACA), which contains the original FIAR data for all hardware. FIAR data are then transferred to, defined, and formatted in the LLD. Work is being done to create a web-based version of the LLD in order to increase accessibility to all of Johnson Space Center (JSC), which includes converting entries from Excel to the HTML format. FIARs related to the EMU have been completed in the Excel version, and now focus has shifted to expanding FIAR data in the LLD to include EVA tools and support hardware such as

  18. 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)

  19. 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

  20. 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

  1. 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

  2. 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

  3. DOT Online Database

    Science.gov (United States)

    Page Home Table of Contents Contents Search Database Search Login Login Databases Advisory Circulars accessed by clicking below: Full-Text WebSearch Databases Database Records Date Advisory Circulars 2092 5 data collection and distribution policies. Document Database Website provided by MicroSearch

  4. XML databases and the semantic web

    CERN Document Server

    Thuraisingham, Bhavani

    2002-01-01

    Efficient access to data, sharing data, extracting information from data, and making use of the information have become urgent needs for today''s corporations. With so much data on the Web, managing it with conventional tools is becoming almost impossible. New tools and techniques are necessary to provide interoperability as well as warehousing between multiple data sources and systems, and to extract information from the databases. XML Databases and the Semantic Web focuses on critical and new Web technologies needed for organizations to carry out transactions on the Web, to understand how to use the Web effectively, and to exchange complex documents on the Web.This reference for database administrators, database designers, and Web designers working in tandem with database technologists covers three emerging technologies of significant impact for electronic business: Extensible Markup Language (XML), semi-structured databases, and the semantic Web. The first two parts of the book explore these emerging techn...

  5. Study on managing EPICS database using ORACLE

    International Nuclear Information System (INIS)

    Liu Shu; Wang Chunhong; Zhao Jijiu

    2007-01-01

    EPICS is used as a development toolkit of BEPCII control system. The core of EPICS is a distributed database residing in front-end machines. The distributed database is usually created by tools such as VDCT and text editor in the host, then loaded to front-end target IOCs through the network. In BEPCII control system there are about 20,000 signals, which are distributed in more than 20 IOCs. All the databases are developed by device control engineers using VDCT or text editor. There's no uniform tools providing transparent management. The paper firstly presents the current status on EPICS database management issues in many labs. Secondly, it studies EPICS database and the interface between ORACLE and EPICS database. finally, it introduces the software development and application is BEPCII control system. (authors)

  6. Databases of the marine metagenomics

    KAUST Repository

    Mineta, Katsuhiko

    2015-10-28

    The metagenomic data obtained from marine environments is significantly useful for understanding marine microbial communities. In comparison with the conventional amplicon-based approach of metagenomics, the recent shotgun sequencing-based approach has become a powerful tool that provides an efficient way of grasping a diversity of the entire microbial community at a sampling point in the sea. However, this approach accelerates accumulation of the metagenome data as well as increase of data complexity. Moreover, when metagenomic approach is used for monitoring a time change of marine environments at multiple locations of the seawater, accumulation of metagenomics data will become tremendous with an enormous speed. Because this kind of situation has started becoming of reality at many marine research institutions and stations all over the world, it looks obvious that the data management and analysis will be confronted by the so-called Big Data issues such as how the database can be constructed in an efficient way and how useful knowledge should be extracted from a vast amount of the data. In this review, we summarize the outline of all the major databases of marine metagenome that are currently publically available, noting that database exclusively on marine metagenome is none but the number of metagenome databases including marine metagenome data are six, unexpectedly still small. We also extend our explanation to the databases, as reference database we call, that will be useful for constructing a marine metagenome database as well as complementing important information with the database. Then, we would point out a number of challenges to be conquered in constructing the marine metagenome database.

  7. A database for coconut crop improvement.

    Science.gov (United States)

    Rajagopal, Velamoor; Manimekalai, Ramaswamy; Devakumar, Krishnamurthy; Rajesh; Karun, Anitha; Niral, Vittal; Gopal, Murali; Aziz, Shamina; Gunasekaran, Marimuthu; Kumar, Mundappurathe Ramesh; Chandrasekar, Arumugam

    2005-12-08

    Coconut crop improvement requires a number of biotechnology and bioinformatics tools. A database containing information on CG (coconut germplasm), CCI (coconut cultivar identification), CD (coconut disease), MIFSPC (microbial information systems in plantation crops) and VO (vegetable oils) is described. The database was developed using MySQL and PostgreSQL running in Linux operating system. The database interface is developed in PHP, HTML and JAVA. http://www.bioinfcpcri.org.

  8. PostgreSQL database performance optimization

    OpenAIRE

    Wang, Qiang

    2011-01-01

    The thesis was request by Marlevo software Oy for a general description of the PostgreSQL database and its performance optimization technics. Its purpose was to help new PostgreSQL users to quickly understand the system and to assist DBAs to improve the database performance. The thesis was divided into two parts. The first part described PostgreSQL database optimization technics in theory. In additional popular tools were also introduced. This part was based on PostgreSQL documentation, r...

  9. Dietary Supplement Ingredient Database

    Science.gov (United States)

    ... and US Department of Agriculture Dietary Supplement Ingredient Database Toggle navigation Menu Home About DSID Mission Current ... values can be saved to build a small database or add to an existing database for national, ...

  10. Energy Consumption Database

    Science.gov (United States)

    Consumption Database The California Energy Commission has created this on-line database for informal reporting ) classifications. The database also provides easy downloading of energy consumption data into Microsoft Excel (XLSX

  11. Oracle database 12c the complete reference

    CERN Document Server

    Bryla, Bob

    2014-01-01

    Maintain a scalable, highly available enterprise platform and reduce complexity by leveraging the powerful new tools and cloud enhancements of Oracle Database 12c. This authoritative Oracle Press guide offers complete coverage of installation, configuration, tuning, and administration. Find out how to build and populate Oracle databases, perform effective queries, design applications, and secure your enterprise data

  12. A Sandia telephone database system

    Energy Technology Data Exchange (ETDEWEB)

    Nelson, S.D.; Tolendino, L.F.

    1991-08-01

    Sandia National Laboratories, Albuquerque, may soon have more responsibility for the operation of its own telephone system. The processes that constitute providing telephone service can all be improved through the use of a central data information system. We studied these processes, determined the requirements for a database system, then designed the first stages of a system that meets our needs for work order handling, trouble reporting, and ISDN hardware assignments. The design was based on an extensive set of applications that have been used for five years to manage the Sandia secure data network. The system utilizes an Ingres database management system and is programmed using the Application-By-Forms tools.

  13. Collecting Taxes Database

    Data.gov (United States)

    US Agency for International Development — The Collecting Taxes Database contains performance and structural indicators about national tax systems. The database contains quantitative revenue performance...

  14. USAID Anticorruption Projects Database

    Data.gov (United States)

    US Agency for International Development — The Anticorruption Projects Database (Database) includes information about USAID projects with anticorruption interventions implemented worldwide between 2007 and...

  15. 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 ...

  16. SmallSat Database

    Science.gov (United States)

    Petropulos, Dolores; Bittner, David; Murawski, Robert; Golden, Bert

    2015-01-01

    required. When completed it will interface with the SCENIC environment to allow modeling of smallSats. The SmallSat Relational Database can also be integrated with the SCENIC Simulation modeling system that is currently in development. The SmallSat Relational Database simulation will be of great significance in assisting the NASA SCaN group to understand the impact the smallSats have made which have populated the lower orbit around our mother earth. What I have created and worked on this summer session 2015, is the basis for a tool that will be of value to the NASA SCaN SCENIC Simulation Environment for years to come.

  17. Managing the BABAR Object Oriented Database

    International Nuclear Information System (INIS)

    Hasan, Adil

    2002-01-01

    The BaBar experiment stores its data in an Object Oriented federated database supplied by Objectivity/DB(tm). This database is currently 350TB in size and is expected to increase considerably as the experiment matures. Management of this database requires careful planning and specialized tools in order to make the data available to physicists in an efficient and timely manner. We discuss the operational issues and management tools that were developed during the previous run to deal with this vast quantity of data at SLAC

  18. ADASS Web Database XML Project

    Science.gov (United States)

    Barg, M. I.; Stobie, E. B.; Ferro, A. J.; O'Neil, E. J.

    In the spring of 2000, at the request of the ADASS Program Organizing Committee (POC), we began organizing information from previous ADASS conferences in an effort to create a centralized database. The beginnings of this database originated from data (invited speakers, participants, papers, etc.) extracted from HyperText Markup Language (HTML) documents from past ADASS host sites. Unfortunately, not all HTML documents are well formed and parsing them proved to be an iterative process. It was evident at the beginning that if these Web documents were organized in a standardized way, such as XML (Extensible Markup Language), the processing of this information across the Web could be automated, more efficient, and less error prone. This paper will briefly review the many programming tools available for processing XML, including Java, Perl and Python, and will explore the mapping of relational data from our MySQL database to XML.

  19. RA radiological characterization database application

    International Nuclear Information System (INIS)

    Steljic, M.M; Ljubenov, V.Lj. . E-mail address of corresponding author: milijanas@vin.bg.ac.yu; Steljic, M.M.)

    2005-01-01

    Radiological characterization of the RA research reactor is one of the main activities in the first two years of the reactor decommissioning project. The raw characterization data from direct measurements or laboratory analyses (defined within the existing sampling and measurement programme) have to be interpreted, organized and summarized in order to prepare the final characterization survey report. This report should be made so that the radiological condition of the entire site is completely and accurately shown with the radiological condition of the components clearly depicted. This paper presents an electronic database application, designed as a serviceable and efficient tool for characterization data storage, review and analysis, as well as for the reports generation. Relational database model was designed and the application is made by using Microsoft Access 2002 (SP1), a 32-bit RDBMS for the desktop and client/server database applications that run under Windows XP. (author)

  20. The Danish ventral hernia database

    DEFF Research Database (Denmark)

    Helgstrand, Frederik; Jorgensen, Lars Nannestad

    2016-01-01

    Aim: The Danish Ventral Hernia Database (DVHD) provides national surveillance of current surgical practice and clinical postoperative outcomes. The intention is to reduce postoperative morbidity and hernia recurrence, evaluate new treatment strategies, and facilitate nationwide implementation of ...... of operations and is an excellent tool for observing changes over time, including adjustment of several confounders. This national database registry has impacted on clinical practice in Denmark and led to a high number of scientific publications in recent years.......Aim: The Danish Ventral Hernia Database (DVHD) provides national surveillance of current surgical practice and clinical postoperative outcomes. The intention is to reduce postoperative morbidity and hernia recurrence, evaluate new treatment strategies, and facilitate nationwide implementation...... to the surgical repair are recorded. Data registration is mandatory. Data may be merged with other Danish health registries and information from patient questionnaires or clinical examinations. Descriptive data: More than 37,000 operations have been registered. Data have demonstrated high agreement with patient...

  1. 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

  2. Testing the performance of NoSQL databases via the Database Benchmark tool / Тестирование возможностей базы данных NoSQL с помощью Database Benchmark инструмента / Testiranje performansi NoSQL baza podataka pomoću database benchmark alata

    Directory of Open Access Journals (Sweden)

    Lazar J. Krstić

    2018-07-01

    Full Text Available NoSQL is often used as a successful alternative to relational databases, especially when it is necessary to provide adequate system dimensioning, usage of a variety of data types and high efficiency at a low cost for maintaining consistency. The work is conceived in a manner that covers the general concept of a database, i.e. the concept of relational and nonrelational databases, which are substantiated by all important aspects and in an appropriate context. After analyzing the types of NoSQL databases, emphasis is placed on explaining their advantages and disadvantages, as well as on an overview of the NoSQL and SQL database comparison. The final part of the paper presents the results of testing the performance of NoSQL databases, obtained though the Database Benchmark tool. The aim of the paper is to highlight all the details of NoSQL databases in order to establish the justification of their application in practice. / База данных NoSQL часто используется в качестве удачной альтернативы реляционным базам данных, особенно в тех случаях, когда необходимо обеспечить соответствующие размеры системы, применение данных различных типов и высокую эффективность по низкой стоимости хранения и поддержки консистентности данных. В данной работе представлено общее определение базы данных, описаны различные виды баз данных как реляционных, так и нереляционных, выявлены их преимущества и недостатки в соответствующем контексте. Выявленные преимущества и недостатки баз данных NoSQL и SQL проана

  3. KALIMER database development

    Energy Technology Data Exchange (ETDEWEB)

    Jeong, Kwan Seong; Lee, Yong Bum; Jeong, Hae Yong; Ha, Kwi Seok

    2003-03-01

    KALIMER database is an advanced database to utilize the integration management for liquid metal reactor design technology development using Web applications. KALIMER design database is composed of results database, Inter-Office Communication (IOC), 3D CAD database, and reserved documents database. Results database is a research results database during all phase for liquid metal reactor design technology development of mid-term and long-term nuclear R and D. IOC is a linkage control system inter sub project to share and integrate the research results for KALIMER. 3D CAD database is a schematic overview for KALIMER design structure. And reserved documents database is developed to manage several documents and reports since project accomplishment.

  4. KALIMER database development

    International Nuclear Information System (INIS)

    Jeong, Kwan Seong; Lee, Yong Bum; Jeong, Hae Yong; Ha, Kwi Seok

    2003-03-01

    KALIMER database is an advanced database to utilize the integration management for liquid metal reactor design technology development using Web applications. KALIMER design database is composed of results database, Inter-Office Communication (IOC), 3D CAD database, and reserved documents database. Results database is a research results database during all phase for liquid metal reactor design technology development of mid-term and long-term nuclear R and D. IOC is a linkage control system inter sub project to share and integrate the research results for KALIMER. 3D CAD database is a schematic overview for KALIMER design structure. And reserved documents database is developed to manage several documents and reports since project accomplishment

  5. TWRS technical baseline database manager definition document

    International Nuclear Information System (INIS)

    Acree, C.D.

    1997-01-01

    This document serves as a guide for using the TWRS Technical Baseline Database Management Systems Engineering (SE) support tool in performing SE activities for the Tank Waste Remediation System (TWRS). This document will provide a consistent interpretation of the relationships between the TWRS Technical Baseline Database Management software and the present TWRS SE practices. The Database Manager currently utilized is the RDD-1000 System manufactured by the Ascent Logic Corporation. In other documents, the term RDD-1000 may be used interchangeably with TWRS Technical Baseline Database Manager

  6. DEPOT database: Reference manual and user's guide

    International Nuclear Information System (INIS)

    Clancey, P.; Logg, C.

    1991-03-01

    DEPOT has been developed to provide tracking for the Stanford Linear Collider (SLC) control system equipment. For each piece of equipment entered into the database, complete location, service, maintenance, modification, certification, and radiation exposure histories can be maintained. To facilitate data entry accuracy, efficiency, and consistency, barcoding technology has been used extensively. DEPOT has been an important tool in improving the reliability of the microsystems controlling SLC. This document describes the components of the DEPOT database, the elements in the database records, and the use of the supporting programs for entering data, searching the database, and producing reports from the information

  7. The STRING database in 2011

    DEFF Research Database (Denmark)

    Szklarczyk, Damian; Franceschini, Andrea; Kuhn, Michael

    2011-01-01

    present an update on the online database resource Search Tool for the Retrieval of Interacting Genes (STRING); it provides uniquely comprehensive coverage and ease of access to both experimental as well as predicted interaction information. Interactions in STRING are provided with a confidence score...... models, extensive data updates and strongly improved connectivity and integration with third-party resources. Version 9.0 of STRING covers more than 1100 completely sequenced organisms; the resource can be reached at http://string-db.org....

  8. 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

  9. 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...

  10. Software listing: CHEMTOX database

    International Nuclear Information System (INIS)

    Moskowitz, P.D.

    1993-01-01

    Initially launched in 1983, the CHEMTOX Database was among the first microcomputer databases containing hazardous chemical information. The database is used in many industries and government agencies in more than 17 countries. Updated quarterly, the CHEMTOX Database provides detailed environmental and safety information on 7500-plus hazardous substances covered by dozens of regulatory and advisory sources. This brief listing describes the method of accessing data and provides ordering information for those wishing to obtain the CHEMTOX Database

  11. SSC lattice database and graphical interface

    International Nuclear Information System (INIS)

    Trahern, C.G.; Zhou, J.

    1991-11-01

    When completed the Superconducting Super Collider will be the world's largest accelerator complex. In order to build this system on schedule, the use of database technologies will be essential. In this paper we discuss one of the database efforts underway at the SSC, the lattice database. The SSC lattice database provides a centralized source for the design of each major component of the accelerator complex. This includes the two collider rings, the High Energy Booster, Medium Energy Booster, Low Energy Booster, and the LINAC as well as transfer and test beam lines. These designs have been created using a menagerie of programs such as SYNCH, DIMAD, MAD, TRANSPORT, MAGIC, TRACE3D AND TEAPOT. However, once a design has been completed, it is entered into a uniform database schema in the database system. In this paper we discuss the reasons for creating the lattice database and its implementation via the commercial database system SYBASE. Each lattice in the lattice database is composed of a set of tables whose data structure can describe any of the SSC accelerator lattices. In order to allow the user community access to the databases, a programmatic interface known as dbsf (for database to several formats) has been written. Dbsf creates ascii input files appropriate to the above mentioned accelerator design programs. In addition it has a binary dataset output using the Self Describing Standard data discipline provided with the Integrated Scientific Tool Kit software tools. Finally we discuss the graphical interfaces to the lattice database. The primary interface, known as OZ, is a simulation environment as well as a database browser

  12. 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.

  13. Development of a personalized training system using the Lung Image Database Consortium and Image Database resource Initiative Database.

    Science.gov (United States)

    Lin, Hongli; Wang, Weisheng; Luo, Jiawei; Yang, Xuedong

    2014-12-01

    The aim of this study was to develop a personalized training system using the Lung Image Database Consortium (LIDC) and Image Database resource Initiative (IDRI) Database, because collecting, annotating, and marking a large number of appropriate computed tomography (CT) scans, and providing the capability of dynamically selecting suitable training cases based on the performance levels of trainees and the characteristics of cases are critical for developing a efficient training system. A novel approach is proposed to develop a personalized radiology training system for the interpretation of lung nodules in CT scans using the Lung Image Database Consortium (LIDC) and Image Database Resource Initiative (IDRI) database, which provides a Content-Boosted Collaborative Filtering (CBCF) algorithm for predicting the difficulty level of each case of each trainee when selecting suitable cases to meet individual needs, and a diagnostic simulation tool to enable trainees to analyze and diagnose lung nodules with the help of an image processing tool and a nodule retrieval tool. Preliminary evaluation of the system shows that developing a personalized training system for interpretation of lung nodules is needed and useful to enhance the professional skills of trainees. The approach of developing personalized training systems using the LIDC/IDRL database is a feasible solution to the challenges of constructing specific training program in terms of cost and training efficiency. Copyright © 2014 AUR. Published by Elsevier Inc. All rights reserved.

  14. 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.

  15. Impact of land use, soil and DEM databases on surface runoff assessment with GIS decision support tool: A study case on the Briançon vineyard catchment (Gard, France)

    Science.gov (United States)

    Regazzoni, C.; Payraudeau, S.

    2012-04-01

    Runoff and associated erosion represent a primary mode of mobilization and transfer of pesticides from agricultural lands to watercourses and groundwater. The pesticides toxicity is potentially higher at the headwater catchment scale. These catchments are usually ungauged and characterized by temporary streams. Several mitigation strategies and management practices are currently used to mitigate the pesticides mixtures in agro-ecosystems. Among those practices, Stormwater Wetlands (SW) could be implemented to store surface runoff and to mitigate pesticides loads. The implementation of New Potential Stormwater Wetlands (NPSW) requires a diagnosis of intermittent runoff at the headwater catchment scale. The main difficulty to perform this diagnosis at the headwater catchment scale is to spatially characterize with enough accuracy the landscape components. Indeed, fields and field margins enhance or decrease the runoff and determine the pathways of hortonian overland flow. Land use, soil and Digital Elevation Model databases are systematically used. The question of the respective weight of each of these databases on the uncertainty of the diagnostic results is rarely analyzed at the headwater catchment scale. Therefore, this work focused (i) on the uncertainties of each of these databases and their propagation on the hortonian overland flow modelling, (ii) the methods to improve the accuracy of each database, (iii) the propagation of the databases uncertainties on intermittent runoff modelling and (iv) the impact of modelling cell size on the diagnosis. The model developed was a raster approach of the SCS-CN method integrating re-infiltration processes. The uncertainty propagation was analyzed on the Briançon vineyard catchment (Gard, France, 1400 ha). Based on this study site, the results showed that the geographic and thematic accuracies of regional soil database (1:250 000) were insufficient to correctly simulate the hortonian overland flow. These results have to

  16. Database Description - PSCDB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available abase Description General information of database Database name PSCDB Alternative n...rial Science and Technology (AIST) Takayuki Amemiya E-mail: Database classification Structure Databases - Protein structure Database...554-D558. External Links: Original website information Database maintenance site Graduate School of Informat...available URL of Web services - Need for user registration Not available About This Database Database Descri...ption Download License Update History of This Database Site Policy | Contact Us Database Description - PSCDB | LSDB Archive ...

  17. Directory of IAEA databases

    International Nuclear Information System (INIS)

    1991-11-01

    The first edition of the Directory of IAEA Databases is intended to describe the computerized information sources available to IAEA staff members. It contains a listing of all databases produced at the IAEA, together with information on their availability

  18. Native Health Research Database

    Science.gov (United States)

    ... Indian Health Board) Welcome to the Native Health Database. Please enter your search terms. Basic Search Advanced ... To learn more about searching the Native Health Database, click here. Tutorial Video The NHD has made ...

  19. Cell Centred Database (CCDB)

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Cell Centered Database (CCDB) is a web accessible database for high resolution 2D, 3D and 4D data from light and electron microscopy, including correlated imaging.

  20. E3 Staff Database

    Data.gov (United States)

    US Agency for International Development — E3 Staff database is maintained by E3 PDMS (Professional Development & Management Services) office. The database is Mysql. It is manually updated by E3 staff as...

  1. NIRS database of the original research database

    International Nuclear Information System (INIS)

    Morita, Kyoko

    1991-01-01

    Recently, library staffs arranged and compiled the original research papers that have been written by researchers for 33 years since National Institute of Radiological Sciences (NIRS) established. This papers describes how the internal database of original research papers has been created. This is a small sample of hand-made database. This has been cumulating by staffs who have any knowledge about computer machine or computer programming. (author)

  2. Scopus database: a review.

    Science.gov (United States)

    Burnham, Judy F

    2006-03-08

    The Scopus database provides access to STM journal articles and the references included in those articles, allowing the searcher to search both forward and backward in time. The database can be used for collection development as well as for research. This review provides information on the key points of the database and compares it to Web of Science. Neither database is inclusive, but complements each other. If a library can only afford one, choice must be based in institutional needs.

  3. 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.

  4. 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.

  5. A guide to Internet atomic databases for hot plasmas

    International Nuclear Information System (INIS)

    Ralchenko, Yuri

    2006-01-01

    Internet atomic databases are nowadays considered to be the primary tool for dissemination of atomic data. We present here a review of numerical and bibliographic databases of importance for diagnostics of hot plasmas. Special attention is given to new and emerging trends, such as online calculation of various atomic parameters. The recently updated NIST databases are presented in detail

  6. A guide to Internet atomic databases for hot plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Ralchenko, Yuri [National Institute of Standards and Technology, Gaithersburg, MD 20899-8422 (United States)]. E-mail: yuri.ralchenko@nist.gov

    2006-05-15

    Internet atomic databases are nowadays considered to be the primary tool for dissemination of atomic data. We present here a review of numerical and bibliographic databases of importance for diagnostics of hot plasmas. Special attention is given to new and emerging trends, such as online calculation of various atomic parameters. The recently updated NIST databases are presented in detail.

  7. Developing Visualization Support System for Teaching/Learning Database Normalization

    Science.gov (United States)

    Folorunso, Olusegun; Akinwale, AdioTaofeek

    2010-01-01

    Purpose: In tertiary institution, some students find it hard to learn database design theory, in particular, database normalization. The purpose of this paper is to develop a visualization tool to give students an interactive hands-on experience in database normalization process. Design/methodology/approach: The model-view-controller architecture…

  8. Automated Oracle database testing

    CERN Multimedia

    CERN. Geneva

    2014-01-01

    Ensuring database stability and steady performance in the modern world of agile computing is a major challenge. Various changes happening at any level of the computing infrastructure: OS parameters & packages, kernel versions, database parameters & patches, or even schema changes, all can potentially harm production services. This presentation shows how an automatic and regular testing of Oracle databases can be achieved in such agile environment.

  9. Inleiding database-systemen

    NARCIS (Netherlands)

    Pels, H.J.; Lans, van der R.F.; Pels, H.J.; Meersman, R.A.

    1993-01-01

    Dit artikel introduceert de voornaamste begrippen die een rol spelen rond databases en het geeft een overzicht van de doelstellingen, de functies en de componenten van database-systemen. Hoewel de functie van een database intuitief vrij duidelijk is, is het toch een in technologisch opzicht complex

  10. Electronic database of arterial aneurysms

    Directory of Open Access Journals (Sweden)

    Fabiano Luiz Erzinger

    2014-12-01

    Full Text Available Background:The creation of an electronic database facilitates the storage of information, as well as streamlines the exchange of data, making easier the exchange of knowledge for future research.Objective:To construct an electronic database containing comprehensive and up-to-date clinical and surgical data on the most common arterial aneurysms, to help advance scientific research.Methods:The most important specialist textbooks and articles found in journals and on internet databases were reviewed in order to define the basic structure of the protocol. Data were computerized using the SINPE© system for integrated electronic protocols and tested in a pilot study.Results:The data entered onto the system was first used to create a Master protocol, organized into a structure of top-level directories covering a large proportion of the content on vascular diseases as follows: patient history; physical examination; supplementary tests and examinations; diagnosis; treatment; and clinical course. By selecting items from the Master protocol, Specific protocols were then created for the 22 arterial sites most often involved by aneurysms. The program provides a method for collection of data on patients including clinical characteristics (patient history and physical examination, supplementary tests and examinations, treatments received and follow-up care after treatment. Any information of interest on these patients that is contained in the protocol can then be used to query the database and select data for studies.Conclusions:It proved possible to construct a database of clinical and surgical data on the arterial aneurysms of greatest interest and, by adapting the data to specific software, the database was integrated into the SINPE© system, thereby providing a standardized method for collection of data on these patients and tools for retrieving this information in an organized manner for use in scientific studies.

  11. YMDB: the Yeast Metabolome Database

    Science.gov (United States)

    Jewison, Timothy; Knox, Craig; Neveu, Vanessa; Djoumbou, Yannick; Guo, An Chi; Lee, Jacqueline; Liu, Philip; Mandal, Rupasri; Krishnamurthy, Ram; Sinelnikov, Igor; Wilson, Michael; Wishart, David S.

    2012-01-01

    The Yeast Metabolome Database (YMDB, http://www.ymdb.ca) is a richly annotated ‘metabolomic’ database containing detailed information about the metabolome of Saccharomyces cerevisiae. Modeled closely after the Human Metabolome Database, the YMDB contains >2000 metabolites with links to 995 different genes/proteins, including enzymes and transporters. The information in YMDB has been gathered from hundreds of books, journal articles and electronic databases. In addition to its comprehensive literature-derived data, the YMDB also contains an extensive collection of experimental intracellular and extracellular metabolite concentration data compiled from detailed Mass Spectrometry (MS) and Nuclear Magnetic Resonance (NMR) metabolomic analyses performed in our lab. This is further supplemented with thousands of NMR and MS spectra collected on pure, reference yeast metabolites. Each metabolite entry in the YMDB contains an average of 80 separate data fields including comprehensive compound description, names and synonyms, structural information, physico-chemical data, reference NMR and MS spectra, intracellular/extracellular concentrations, growth conditions and substrates, pathway information, enzyme data, gene/protein sequence data, as well as numerous hyperlinks to images, references and other public databases. Extensive searching, relational querying and data browsing tools are also provided that support text, chemical structure, spectral, molecular weight and gene/protein sequence queries. Because of S. cervesiae's importance as a model organism for biologists and as a biofactory for industry, we believe this kind of database could have considerable appeal not only to metabolomics researchers, but also to yeast biologists, systems biologists, the industrial fermentation industry, as well as the beer, wine and spirit industry. PMID:22064855

  12. Digitizing Olin Eggen's Card Database

    Science.gov (United States)

    Crast, J.; Silvis, G.

    2017-06-01

    The goal of the Eggen Card Database Project is to recover as many of the photometric observations from Olin Eggen's Card Database as possible and preserve these observations, in digital forms that are accessible by anyone. Any observations of interest to the AAVSO will be added to the AAVSO International Database (AID). Given to the AAVSO on long-term loan by the Cerro Tololo Inter-American Observatory, the database is a collection of over 78,000 index cards holding all Eggen's observations made between 1960 and 1990. The cards were electronically scanned and the resulting 108,000 card images have been published as a series of 2,216 PDF files, which are available from the AAVSO web site. The same images are also stored in an AAVSO online database where they are indexed by star name and card content. These images can be viewed using the eggen card portal online tool. Eggen made observations using filter bands from five different photometric systems. He documented these observations using 15 different data recording formats. Each format represents a combination of filter magnitudes and color indexes. These observations are being transcribed onto spreadsheets, from which observations of value to the AAVSO are added to the AID. A total of 506 U, B, V, R, and I observations were added to the AID for the variable stars S Car and l Car. We would like the reader to search through the card database using the eggen card portal for stars of particular interest. If such stars are found and retrieval of the observations is desired, e-mail the authors, and we will be happy to help retrieve those data for the reader.

  13. Database Description - RMOS | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name RMOS Alternative nam...arch Unit Shoshi Kikuchi E-mail : Database classification Plant databases - Rice Microarray Data and other Gene Expression Database...s Organism Taxonomy Name: Oryza sativa Taxonomy ID: 4530 Database description The Ric...19&lang=en Whole data download - Referenced database Rice Expression Database (RED) Rice full-length cDNA Database... (KOME) Rice Genome Integrated Map Database (INE) Rice Mutant Panel Database (Tos17) Rice Genome Annotation Database

  14. 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. 

  15. 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

  16. Nuclear power economic database

    International Nuclear Information System (INIS)

    Ding Xiaoming; Li Lin; Zhao Shiping

    1996-01-01

    Nuclear power economic database (NPEDB), based on ORACLE V6.0, consists of three parts, i.e., economic data base of nuclear power station, economic data base of nuclear fuel cycle and economic database of nuclear power planning and nuclear environment. Economic database of nuclear power station includes data of general economics, technique, capital cost and benefit, etc. Economic database of nuclear fuel cycle includes data of technique and nuclear fuel price. Economic database of nuclear power planning and nuclear environment includes data of energy history, forecast, energy balance, electric power and energy facilities

  17. Development of a dementia assessment quality database

    DEFF Research Database (Denmark)

    Johannsen, P.; Jørgensen, Kasper; Korner, A.

    2011-01-01

    OBJECTIVE: Increased focus on the quality of health care requires tools and information to address and improve quality. One tool to evaluate and report the quality of clinical health services is quality indicators based on a clinical database. METHOD: The Capital Region of Denmark runs a quality...... database for dementia evaluation in the secondary health system. One volume and seven process quality indicators on dementia evaluations are monitored. Indicators include frequency of demented patients, percentage of patients evaluated within three months, whether the work-up included blood tests, Mini...... for the data analyses. RESULTS: The database was constructed in 2005 and covers 30% of the Danish population. Data from all consecutive cases evaluated for dementia in the secondary health system in the Capital Region of Denmark are entered. The database has shown that the basic diagnostic work-up programme...

  18. Database Description - RPD | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ase Description General information of database Database name RPD Alternative name Rice Proteome Database...titute of Crop Science, National Agriculture and Food Research Organization Setsuko Komatsu E-mail: Database... classification Proteomics Resources Plant databases - Rice Organism Taxonomy Name: Oryza sativa Taxonomy ID: 4530 Database... description Rice Proteome Database contains information on protei...and entered in the Rice Proteome Database. The database is searchable by keyword,

  19. Database Description - JSNP | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name JSNP Alternative nam...n Science and Technology Agency Creator Affiliation: Contact address E-mail : Database...sapiens Taxonomy ID: 9606 Database description A database of about 197,000 polymorphisms in Japanese populat...1):605-610 External Links: Original website information Database maintenance site Institute of Medical Scien...er registration Not available About This Database Database Description Download License Update History of This Database

  20. Database Description - ASTRA | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available abase Description General information of database Database name ASTRA Alternative n...tics Journal Search: Contact address Database classification Nucleotide Sequence Databases - Gene structure,...3702 Taxonomy Name: Oryza sativa Taxonomy ID: 4530 Database description The database represents classified p...(10):1211-6. External Links: Original website information Database maintenance site National Institute of Ad... for user registration Not available About This Database Database Description Dow

  1. Database Description - RED | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ase Description General information of database Database name RED Alternative name Rice Expression Database...enome Research Unit Shoshi Kikuchi E-mail : Database classification Plant databases - Rice Database classifi...cation Microarray, Gene Expression Organism Taxonomy Name: Oryza sativa Taxonomy ID: 4530 Database descripti... Article title: Rice Expression Database: the gateway to rice functional genomics...nt Science (2002) Dec 7 (12):563-564 External Links: Original website information Database maintenance site

  2. Database Description - PLACE | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available abase Description General information of database Database name PLACE Alternative name A Database...Kannondai, Tsukuba, Ibaraki 305-8602, Japan National Institute of Agrobiological Sciences E-mail : Databas...e classification Plant databases Organism Taxonomy Name: Tracheophyta Taxonomy ID: 58023 Database...99, Vol.27, No.1 :297-300 External Links: Original website information Database maintenance site National In...- Need for user registration Not available About This Database Database Descripti

  3. Database Description - Arabidopsis Phenome Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Arabidopsis Phenome Database Database Description General information of database Database n... BioResource Center Hiroshi Masuya Database classification Plant databases - Arabidopsis thaliana Organism T...axonomy Name: Arabidopsis thaliana Taxonomy ID: 3702 Database description The Arabidopsis thaliana phenome i...heir effective application. We developed the new Arabidopsis Phenome Database integrating two novel database...seful materials for their experimental research. The other, the “Database of Curated Plant Phenome” focusing

  4. Database activities at Brookhaven National Laboratory

    International Nuclear Information System (INIS)

    Trahern, C.G.

    1995-01-01

    Brookhaven National Laboratory is a multi-disciplinary lab in the DOE system of research laboratories. Database activities are correspondingly diverse within the restrictions imposed by the dominant relational database paradigm. The authors discuss related activities and tools used in RHIC and in the other major projects at BNL. The others are the Protein Data Bank being maintained by the Chemistry department, and a Geographical Information System (GIS)--a Superfund sponsored environmental monitoring project under development in the Office of Environmental Restoration

  5. CAR2 - Czech Database of Car Speech

    Directory of Open Access Journals (Sweden)

    P. Sovka

    1999-12-01

    Full Text Available This paper presents new Czech language two-channel (stereo speech database recorded in car environment. The created database was designed for experiments with speech enhancement for communication purposes and for the study and the design of a robust speech recognition systems. Tools for automated phoneme labelling based on Baum-Welch re-estimation were realised. The noise analysis of the car background environment was done.

  6. CAR2 - Czech Database of Car Speech

    OpenAIRE

    Pollak, P.; Vopicka, J.; Hanzl, V.; Sovka, Pavel

    1999-01-01

    This paper presents new Czech language two-channel (stereo) speech database recorded in car environment. The created database was designed for experiments with speech enhancement for communication purposes and for the study and the design of a robust speech recognition systems. Tools for automated phoneme labelling based on Baum-Welch re-estimation were realised. The noise analysis of the car background environment was done.

  7. Analysis of Cloud-Based Database Systems

    Science.gov (United States)

    2015-06-01

    deploying the VM, we installed SQL Server 2014 relational database management software (RDBMS) and restored a copy of the PYTHON database onto the server ...management views within SQL Server , we retrieved lists of the most commonly executed queries, the percentage of reads versus writes, as well as...Monitor. This gave us data regarding resource utilization and queueing. The second tool we used was the SQL Server Profiler provided by Microsoft

  8. The MAJORANA Parts Tracking Database

    Energy Technology Data Exchange (ETDEWEB)

    Abgrall, N. [Nuclear Science Division, Lawrence Berkeley National Laboratory, Berkeley, CA (United States); Aguayo, E. [Pacific Northwest National Laboratory, Richland, WA (United States); Avignone, F.T. [Department of Physics and Astronomy, University of South Carolina, Columbia, SC (United States); Oak Ridge National Laboratory, Oak Ridge, TN (United States); Barabash, A.S. [Institute for Theoretical and Experimental Physics, Moscow (Russian Federation); Bertrand, F.E. [Oak Ridge National Laboratory, Oak Ridge, TN (United States); Brudanin, V. [Joint Institute for Nuclear Research, Dubna (Russian Federation); Busch, M. [Department of Physics, Duke University, Durham, NC (United States); Triangle Universities Nuclear Laboratory, Durham, NC (United States); Byram, D. [Department of Physics, University of South Dakota, Vermillion, SD (United States); Caldwell, A.S. [South Dakota School of Mines and Technology, Rapid City, SD (United States); Chan, Y-D. [Nuclear Science Division, Lawrence Berkeley National Laboratory, Berkeley, CA (United States); Christofferson, C.D. [South Dakota School of Mines and Technology, Rapid City, SD (United States); Combs, D.C. [Department of Physics, North Carolina State University, Raleigh, NC (United States); Triangle Universities Nuclear Laboratory, Durham, NC (United States); Cuesta, C.; Detwiler, J.A.; Doe, P.J. [Center for Experimental Nuclear Physics and Astrophysics, and Department of Physics, University of Washington, Seattle, WA (United States); Efremenko, Yu. [Department of Physics and Astronomy, University of Tennessee, Knoxville, TN (United States); Egorov, V. [Joint Institute for Nuclear Research, Dubna (Russian Federation); Ejiri, H. [Research Center for Nuclear Physics and Department of Physics, Osaka University, Ibaraki, Osaka (Japan); Elliott, S.R. [Los Alamos National Laboratory, Los Alamos, NM (United States); and others

    2015-04-11

    The MAJORANA DEMONSTRATOR is an ultra-low background physics experiment searching for the neutrinoless double beta decay of {sup 76}Ge. The MAJORANA Parts Tracking Database is used to record the history of components used in the construction of the DEMONSTRATOR. The tracking implementation takes a novel approach based on the schema-free database technology CouchDB. Transportation, storage, and processes undergone by parts such as machining or cleaning are linked to part records. Tracking parts provide a great logistics benefit and an important quality assurance reference during construction. In addition, the location history of parts provides an estimate of their exposure to cosmic radiation. A web application for data entry and a radiation exposure calculator have been developed as tools for achieving the extreme radio-purity required for this rare decay search.

  9. The MAJORANA Parts Tracking Database

    Science.gov (United States)

    Abgrall, N.; Aguayo, E.; Avignone, F. T.; Barabash, A. S.; Bertrand, F. E.; Brudanin, V.; Busch, M.; Byram, D.; Caldwell, A. S.; Chan, Y.-D.; Christofferson, C. D.; Combs, D. C.; Cuesta, C.; Detwiler, J. A.; Doe, P. J.; Efremenko, Yu.; Egorov, V.; Ejiri, H.; Elliott, S. R.; Esterline, J.; Fast, J. E.; Finnerty, P.; Fraenkle, F. M.; Galindo-Uribarri, A.; Giovanetti, G. K.; Goett, J.; Green, M. P.; Gruszko, J.; Guiseppe, V. E.; Gusev, K.; Hallin, A. L.; Hazama, R.; Hegai, A.; Henning, R.; Hoppe, E. W.; Howard, S.; Howe, M. A.; Keeter, K. J.; Kidd, M. F.; Kochetov, O.; Konovalov, S. I.; Kouzes, R. T.; LaFerriere, B. D.; Leon, J. Diaz; Leviner, L. E.; Loach, J. C.; MacMullin, J.; Martin, R. D.; Meijer, S. J.; Mertens, S.; Miller, M. L.; Mizouni, L.; Nomachi, M.; Orrell, J. L.; O`Shaughnessy, C.; Overman, N. R.; Petersburg, R.; Phillips, D. G.; Poon, A. W. P.; Pushkin, K.; Radford, D. C.; Rager, J.; Rielage, K.; Robertson, R. G. H.; Romero-Romero, E.; Ronquest, M. C.; Shanks, B.; Shima, T.; Shirchenko, M.; Snavely, K. J.; Snyder, N.; Soin, A.; Suriano, A. M.; Tedeschi, D.; Thompson, J.; Timkin, V.; Tornow, W.; Trimble, J. E.; Varner, R. L.; Vasilyev, S.; Vetter, K.; Vorren, K.; White, B. R.; Wilkerson, J. F.; Wiseman, C.; Xu, W.; Yakushev, E.; Young, A. R.; Yu, C.-H.; Yumatov, V.; Zhitnikov, I.

    2015-04-01

    The MAJORANA DEMONSTRATOR is an ultra-low background physics experiment searching for the neutrinoless double beta decay of 76Ge. The MAJORANA Parts Tracking Database is used to record the history of components used in the construction of the DEMONSTRATOR. The tracking implementation takes a novel approach based on the schema-free database technology CouchDB. Transportation, storage, and processes undergone by parts such as machining or cleaning are linked to part records. Tracking parts provide a great logistics benefit and an important quality assurance reference during construction. In addition, the location history of parts provides an estimate of their exposure to cosmic radiation. A web application for data entry and a radiation exposure calculator have been developed as tools for achieving the extreme radio-purity required for this rare decay search.

  10. Serial killer: il database mondiale

    Directory of Open Access Journals (Sweden)

    Gaetano parente

    2016-07-01

    Full Text Available The complex and multisided study of serial killers is partly made difficult by the current level of progress that has led these deviant people to evolve in relation to the aspects of shrewdness (concerning the staging and mobility. Despite the important work of some scholars who proposed important theories, all this shows that, concerning serial murders, it is still particularly frequent not to pay attention to links among homicides committed by the same person but in different parts of the world. It is therefore crucial to develop a worldwide database that allows all police forces to access information collected on crime scenes of murders which are particularly absurd and committed without any apparent reason. It will then be up to the profiler, through ad hoc and technologically advanced tools, to collect this information on the crime scene that would be made available to all police forces thanks to the worldwide database.

  11. The Sequenced Angiosperm Genomes and Genome Databases.

    Science.gov (United States)

    Chen, Fei; Dong, Wei; Zhang, Jiawei; Guo, Xinyue; Chen, Junhao; Wang, Zhengjia; Lin, Zhenguo; Tang, Haibao; Zhang, Liangsheng

    2018-01-01

    Angiosperms, the flowering plants, provide the essential resources for human life, such as food, energy, oxygen, and materials. They also promoted the evolution of human, animals, and the planet earth. Despite the numerous advances in genome reports or sequencing technologies, no review covers all the released angiosperm genomes and the genome databases for data sharing. Based on the rapid advances and innovations in the database reconstruction in the last few years, here we provide a comprehensive review for three major types of angiosperm genome databases, including databases for a single species, for a specific angiosperm clade, and for multiple angiosperm species. The scope, tools, and data of each type of databases and their features are concisely discussed. The genome databases for a single species or a clade of species are especially popular for specific group of researchers, while a timely-updated comprehensive database is more powerful for address of major scientific mysteries at the genome scale. Considering the low coverage of flowering plants in any available database, we propose construction of a comprehensive database to facilitate large-scale comparative studies of angiosperm genomes and to promote the collaborative studies of important questions in plant biology.

  12. Solid Waste Projection Model: Database User's Guide

    International Nuclear Information System (INIS)

    Blackburn, C.L.

    1993-10-01

    The Solid Waste Projection Model (SWPM) system is an analytical tool developed by Pacific Northwest Laboratory (PNL) for Westinghouse Hanford Company (WHC) specifically to address Hanford solid waste management issues. This document is one of a set of documents supporting the SWPM system and providing instructions in the use and maintenance of SWPM components. This manual contains instructions for using Version 1.4 of the SWPM database: system requirements and preparation, entering and maintaining data, and performing routine database functions. This document supports only those operations which are specific to SWPM database menus and functions and does not Provide instruction in the use of Paradox, the database management system in which the SWPM database is established

  13. A trending database for human performance events

    International Nuclear Information System (INIS)

    Harrison, D.

    1993-01-01

    An effective Operations Experience program includes a standardized methodology for the investigation of unplanned events and a tool capable of retaining investigation data for the purpose of trending analysis. A database used in conjunction with a formalized investigation procedure for the purpose of trending unplanning event data is described. The database follows the structure of INPO's Human Performance Enhancement System for investigations. The database screens duplicate on-line the HPES evaluation Forms. All information pertaining to investigations is collected, retained and entered into the database using these forms. The database will be used for trending analysis to determine if any significant patterns exist, for tracking progress over time both within AECL and against industry standards, and for evaluating the success of corrective actions. Trending information will be used to help prevent similar occurrences

  14. Database for waste glass composition and properties

    International Nuclear Information System (INIS)

    Peters, R.D.; Chapman, C.C.; Mendel, J.E.; Williams, C.G.

    1993-09-01

    A database of waste glass composition and properties, called PNL Waste Glass Database, has been developed. The source of data is published literature and files from projects funded by the US Department of Energy. The glass data have been organized into categories and corresponding data files have been prepared. These categories are glass chemical composition, thermal properties, leaching data, waste composition, glass radionuclide composition and crystallinity data. The data files are compatible with commercial database software. Glass compositions are linked to properties across the various files using a unique glass code. Programs have been written in database software language to permit searches and retrievals of data. The database provides easy access to the vast quantities of glass compositions and properties that have been studied. It will be a tool for researchers and others investigating vitrification and glass waste forms

  15. Developing of tensile property database system

    International Nuclear Information System (INIS)

    Park, S. J.; Kim, D. H.; Jeon, J.; Ryu, W. S.

    2002-01-01

    The data base construction using the data produced from tensile experiment can increase the application of test results. Also, we can get the basic data ease from database when we prepare the new experiment and can produce high quality result by compare the previous data. The development part must be analysis and design more specific to construct the database and after that, we can offer the best quality to customers various requirements. In this thesis, the tensile database system was developed by internet method using JSP(Java Server pages) tool

  16. Global marine radioactivity database (GLOMARD)

    International Nuclear Information System (INIS)

    Povinec, P.P.; Gayol, J.; Togawa, O.

    1999-01-01

    In response to the request of Member States and under the IAEA's mandate, the IAEA Marine Environment Laboratory (MEL) in Monaco has established and maintains a Global Marine Radioactivity Database (GLOMARD). It is a vast project compiling radionuclide measurements taken in the marine environment. It consists of systematic input of all radionuclide concentration data available for sea water, sediment, biota and suspended matter. The GLOMARD is therefore a powerful tool for the researchers of MEL as it integrates the results of analyses in most of the areas of the marine environment which have been investigated

  17. 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...

  18. Database Optimizing Services

    Directory of Open Access Journals (Sweden)

    Adrian GHENCEA

    2010-12-01

    Full Text Available Almost every organization has at its centre a database. The database provides support for conducting different activities, whether it is production, sales and marketing or internal operations. Every day, a database is accessed for help in strategic decisions. The satisfaction therefore of such needs is entailed with a high quality security and availability. Those needs can be realised using a DBMS (Database Management System which is, in fact, software for a database. Technically speaking, it is software which uses a standard method of cataloguing, recovery, and running different data queries. DBMS manages the input data, organizes it, and provides ways of modifying or extracting the data by its users or other programs. Managing the database is an operation that requires periodical updates, optimizing and monitoring.

  19. 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...

  20. Tradeoffs in distributed databases

    OpenAIRE

    Juntunen, R. (Risto)

    2016-01-01

    Abstract In a distributed database data is spread throughout the network into separated nodes with different DBMS systems (Date, 2000). According to CAP-theorem three database properties — consistency, availability and partition tolerance cannot be achieved simultaneously in distributed database systems. Two of these properties can be achieved but not all three at the same time (Brewer, 2000). Since this theorem there has b...

  1. Supply Chain Initiatives Database

    Energy Technology Data Exchange (ETDEWEB)

    None

    2012-11-01

    The Supply Chain Initiatives Database (SCID) presents innovative approaches to engaging industrial suppliers in efforts to save energy, increase productivity and improve environmental performance. This comprehensive and freely-accessible database was developed by the Institute for Industrial Productivity (IIP). IIP acknowledges Ecofys for their valuable contributions. The database contains case studies searchable according to the types of activities buyers are undertaking to motivate suppliers, target sector, organization leading the initiative, and program or partnership linkages.

  2. Database Description - SAHG | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name SAHG Alternative nam...h: Contact address Chie Motono Tel : +81-3-3599-8067 E-mail : Database classification Structure Databases - ...e databases - Protein properties Organism Taxonomy Name: Homo sapiens Taxonomy ID: 9606 Database description... Links: Original website information Database maintenance site The Molecular Profiling Research Center for D...stration Not available About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Database Description - SAHG | LSDB Archive ...

  3. Intermodal Passenger Connectivity Database -

    Data.gov (United States)

    Department of Transportation — The Intermodal Passenger Connectivity Database (IPCD) is a nationwide data table of passenger transportation terminals, with data on the availability of connections...

  4. Transporter Classification Database (TCDB)

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Transporter Classification Database details a comprehensive classification system for membrane transport proteins known as the Transporter Classification (TC)...

  5. Residency Allocation Database

    Data.gov (United States)

    Department of Veterans Affairs — The Residency Allocation Database is used to determine allocation of funds for residency programs offered by Veterans Affairs Medical Centers (VAMCs). Information...

  6. Smart Location Database - Service

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Smart Location Database (SLD) summarizes over 80 demographic, built environment, transit service, and destination accessibility attributes for every census block...

  7. 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

  8. Veterans Administration Databases

    Science.gov (United States)

    The Veterans Administration Information Resource Center provides database and informatics experts, customer service, expert advice, information products, and web technology to VA researchers and others.

  9. IVR EFP Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This database contains trip-level reports submitted by vessels participating in Exempted Fishery projects with IVR reporting requirements.

  10. 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....

  11. Database Publication Practices

    DEFF Research Database (Denmark)

    Bernstein, P.A.; DeWitt, D.; Heuer, A.

    2005-01-01

    There has been a growing interest in improving the publication processes for database research papers. This panel reports on recent changes in those processes and presents an initial cut at historical data for the VLDB Journal and ACM Transactions on Database Systems.......There has been a growing interest in improving the publication processes for database research papers. This panel reports on recent changes in those processes and presents an initial cut at historical data for the VLDB Journal and ACM Transactions on Database Systems....

  12. Smart Location Database - Download

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Smart Location Database (SLD) summarizes over 80 demographic, built environment, transit service, and destination accessibility attributes for every census block...

  13. Database Description - RMG | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ase Description General information of database Database name RMG Alternative name ...raki 305-8602, Japan National Institute of Agrobiological Sciences E-mail : Database... classification Nucleotide Sequence Databases Organism Taxonomy Name: Oryza sativa Japonica Group Taxonomy ID: 39947 Database...rnal: Mol Genet Genomics (2002) 268: 434–445 External Links: Original website information Database...available URL of Web services - Need for user registration Not available About This Database Database Descri

  14. Database Description - KOME | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name KOME Alternative nam... Sciences Plant Genome Research Unit Shoshi Kikuchi E-mail : Database classification Plant databases - Rice ...Organism Taxonomy Name: Oryza sativa Taxonomy ID: 4530 Database description Information about approximately ...Hayashizaki Y, Kikuchi S. Journal: PLoS One. 2007 Nov 28; 2(11):e1235. External Links: Original website information Database...OS) Rice mutant panel database (Tos17) A Database of Plant Cis-acting Regulatory

  15. Update History of This Database - Arabidopsis Phenome Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Arabidopsis Phenome Database Update History of This Database Date Update contents 2017/02/27 Arabidopsis Phenome Data...base English archive site is opened. - Arabidopsis Phenome Database (http://jphenom...e.info/?page_id=95) is opened. About This Database Database Description Download License Update History of This Database... Site Policy | Contact Us Update History of This Database - Arabidopsis Phenome Database | LSDB Archive ...

  16. Update History of This Database - SKIP Stemcell Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us SKIP Stemcell Database Update History of This Database Date Update contents 2017/03/13 SKIP Stemcell Database... English archive site is opened. 2013/03/29 SKIP Stemcell Database ( https://www.skip.med.k...eio.ac.jp/SKIPSearch/top?lang=en ) is opened. About This Database Database Description Download License Update History of This Databa...se Site Policy | Contact Us Update History of This Database - SKIP Stemcell Database | LSDB Archive ...

  17. Update History of This Database - 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 Update History of This Database Date Update contents 201...0/03/29 Yeast Interacting Proteins Database English archive site is opened. 2000/12/4 Yeast Interacting Proteins Database...( http://itolab.cb.k.u-tokyo.ac.jp/Y2H/ ) is released. About This Database Database Description... Download License Update History of This Database Site Policy | Contact Us Update History of This Database... - Yeast Interacting Proteins Database | LSDB Archive ...

  18. Kazusa Marker DataBase: a database for genomics, genetics, and molecular breeding in plants

    Science.gov (United States)

    Shirasawa, Kenta; Isobe, Sachiko; Tabata, Satoshi; Hirakawa, Hideki

    2014-01-01

    In order to provide useful genomic information for agronomical plants, we have established a database, the Kazusa Marker DataBase (http://marker.kazusa.or.jp). This database includes information on DNA markers, e.g., SSR and SNP markers, genetic linkage maps, and physical maps, that were developed at the Kazusa DNA Research Institute. Keyword searches for the markers, sequence data used for marker development, and experimental conditions are also available through this database. Currently, 10 plant species have been targeted: tomato (Solanum lycopersicum), pepper (Capsicum annuum), strawberry (Fragaria × ananassa), radish (Raphanus sativus), Lotus japonicus, soybean (Glycine max), peanut (Arachis hypogaea), red clover (Trifolium pratense), white clover (Trifolium repens), and eucalyptus (Eucalyptus camaldulensis). In addition, the number of plant species registered in this database will be increased as our research progresses. The Kazusa Marker DataBase will be a useful tool for both basic and applied sciences, such as genomics, genetics, and molecular breeding in crops. PMID:25320561

  19. 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.

  20. Toward An Unstructured Mesh Database

    Science.gov (United States)

    Rezaei Mahdiraji, Alireza; Baumann, Peter Peter

    2014-05-01

    Unstructured meshes are used in several application domains such as earth sciences (e.g., seismology), medicine, oceanography, cli- mate modeling, GIS as approximate representations of physical objects. Meshes subdivide a domain into smaller geometric elements (called cells) which are glued together by incidence relationships. The subdivision of a domain allows computational manipulation of complicated physical structures. For instance, seismologists model earthquakes using elastic wave propagation solvers on hexahedral meshes. The hexahedral con- tains several hundred millions of grid points and millions of hexahedral cells. Each vertex node in the hexahedrals stores a multitude of data fields. To run simulation on such meshes, one needs to iterate over all the cells, iterate over incident cells to a given cell, retrieve coordinates of cells, assign data values to cells, etc. Although meshes are used in many application domains, to the best of our knowledge there is no database vendor that support unstructured mesh features. Currently, the main tool for querying and manipulating unstructured meshes are mesh libraries, e.g., CGAL and GRAL. Mesh li- braries are dedicated libraries which includes mesh algorithms and can be run on mesh representations. The libraries do not scale with dataset size, do not have declarative query language, and need deep C++ knowledge for query implementations. Furthermore, due to high coupling between the implementations and input file structure, the implementations are less reusable and costly to maintain. A dedicated mesh database offers the following advantages: 1) declarative querying, 2) ease of maintenance, 3) hiding mesh storage structure from applications, and 4) transparent query optimization. To design a mesh database, the first challenge is to define a suitable generic data model for unstructured meshes. We proposed ImG-Complexes data model as a generic topological mesh data model which extends incidence graph model to multi

  1. Advanced information technology: Building stronger databases

    Energy Technology Data Exchange (ETDEWEB)

    Price, D. [Lawrence Livermore National Lab., CA (United States)

    1994-12-01

    This paper discusses the attributes of the Advanced Information Technology (AIT) tool set, a database application builder designed at the Lawrence Livermore National Laboratory. AIT consists of a C library and several utilities that provide referential integrity across a database, interactive menu and field level help, and a code generator for building tightly controlled data entry support. AIT also provides for dynamic menu trees, report generation support, and creation of user groups. Composition of the library and utilities is discussed, along with relative strengths and weaknesses. In addition, an instantiation of the AIT tool set is presented using a specific application. Conclusions about the future and value of the tool set are then drawn based on the use of the tool set with that specific application.

  2. Download - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Trypanosomes Database Download First of all, please read the license of this database. Data ...1.4 KB) Simple search and download Downlaod via FTP FTP server is sometimes jammed. If it is, access [here]. About This Database Data...base Description Download License Update History of This Database Site Policy | Contact Us Download - Trypanosomes Database | LSDB Archive ...

  3. Database design and database administration for a kindergarten

    OpenAIRE

    Vítek, Daniel

    2009-01-01

    The bachelor thesis deals with creation of database design for a standard kindergarten, installation of the designed database into the database system Oracle Database 10g Express Edition and demonstration of the administration tasks in this database system. The verification of the database was proved by a developed access application.

  4. Directory of IAEA databases

    International Nuclear Information System (INIS)

    1992-12-01

    This second edition of the Directory of IAEA Databases has been prepared within the Division of Scientific and Technical Information (NESI). Its main objective is to describe the computerized information sources available to staff members. This directory contains all databases produced at the IAEA, including databases stored on the mainframe, LAN's and PC's. All IAEA Division Directors have been requested to register the existence of their databases with NESI. For the second edition database owners were requested to review the existing entries for their databases and answer four additional questions. The four additional questions concerned the type of database (e.g. Bibliographic, Text, Statistical etc.), the category of database (e.g. Administrative, Nuclear Data etc.), the available documentation and the type of media used for distribution. In the individual entries on the following pages the answers to the first two questions (type and category) is always listed, but the answers to the second two questions (documentation and media) is only listed when information has been made available

  5. HIV Structural Database

    Science.gov (United States)

    SRD 102 HIV Structural Database (Web, free access)   The HIV Protease Structural Database is an archive of experimentally determined 3-D structures of Human Immunodeficiency Virus 1 (HIV-1), Human Immunodeficiency Virus 2 (HIV-2) and Simian Immunodeficiency Virus (SIV) Proteases and their complexes with inhibitors or products of substrate cleavage.

  6. Balkan Vegetation Database

    NARCIS (Netherlands)

    Vassilev, Kiril; Pedashenko, Hristo; Alexandrova, Alexandra; Tashev, Alexandar; Ganeva, Anna; Gavrilova, Anna; Gradevska, Asya; Assenov, Assen; Vitkova, Antonina; Grigorov, Borislav; Gussev, Chavdar; Filipova, Eva; Aneva, Ina; Knollová, Ilona; Nikolov, Ivaylo; Georgiev, Georgi; Gogushev, Georgi; Tinchev, Georgi; Pachedjieva, Kalina; Koev, Koycho; Lyubenova, Mariyana; Dimitrov, Marius; Apostolova-Stoyanova, Nadezhda; Velev, Nikolay; Zhelev, Petar; Glogov, Plamen; Natcheva, Rayna; Tzonev, Rossen; Boch, Steffen; Hennekens, Stephan M.; Georgiev, Stoyan; Stoyanov, Stoyan; Karakiev, Todor; Kalníková, Veronika; Shivarov, Veselin; Russakova, Veska; Vulchev, Vladimir

    2016-01-01

    The Balkan Vegetation Database (BVD; GIVD ID: EU-00-019; http://www.givd.info/ID/EU-00- 019) is a regional database that consists of phytosociological relevés from different vegetation types from six countries on the Balkan Peninsula (Albania, Bosnia and Herzegovina, Bulgaria, Kosovo, Montenegro

  7. World Database of Happiness

    NARCIS (Netherlands)

    R. Veenhoven (Ruut)

    1995-01-01

    textabstractABSTRACT The World Database of Happiness is an ongoing register of research on subjective appreciation of life. Its purpose is to make the wealth of scattered findings accessible, and to create a basis for further meta-analytic studies. The database involves four sections:
    1.

  8. 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)

  9. Fire test database

    International Nuclear Information System (INIS)

    Lee, J.A.

    1989-01-01

    This paper describes a project recently completed for EPRI by Impell. The purpose of the project was to develop a reference database of fire tests performed on non-typical fire rated assemblies. The database is designed for use by utility fire protection engineers to locate test reports for power plant fire rated assemblies. As utilities prepare to respond to Information Notice 88-04, the database will identify utilities, vendors or manufacturers who have specific fire test data. The database contains fire test report summaries for 729 tested configurations. For each summary, a contact is identified from whom a copy of the complete fire test report can be obtained. Five types of configurations are included: doors, dampers, seals, wraps and walls. The database is computerized. One version for IBM; one for Mac. Each database is accessed through user-friendly software which allows adding, deleting, browsing, etc. through the database. There are five major database files. One each for the five types of tested configurations. The contents of each provides significant information regarding the test method and the physical attributes of the tested configuration. 3 figs

  10. Children's Culture Database (CCD)

    DEFF Research Database (Denmark)

    Wanting, Birgit

    a Dialogue inspired database with documentation, network (individual and institutional profiles) and current news , paper presented at the research seminar: Electronic access to fiction, Copenhagen, November 11-13, 1996......a Dialogue inspired database with documentation, network (individual and institutional profiles) and current news , paper presented at the research seminar: Electronic access to fiction, Copenhagen, November 11-13, 1996...

  11. Atomic Spectra Database (ASD)

    Science.gov (United States)

    SRD 78 NIST Atomic Spectra Database (ASD) (Web, free access)   This database provides access and search capability for NIST critically evaluated data on atomic energy levels, wavelengths, and transition probabilities that are reasonably up-to-date. The NIST Atomic Spectroscopy Data Center has carried out these critical compilations.

  12. Consumer Product Category Database

    Science.gov (United States)

    The Chemical and Product Categories database (CPCat) catalogs the use of over 40,000 chemicals and their presence in different consumer products. The chemical use information is compiled from multiple sources while product information is gathered from publicly available Material Safety Data Sheets (MSDS). EPA researchers are evaluating the possibility of expanding the database with additional product and use information.

  13. Database in Artificial Intelligence.

    Science.gov (United States)

    Wilkinson, Julia

    1986-01-01

    Describes a specialist bibliographic database of literature in the field of artificial intelligence created by the Turing Institute (Glasgow, Scotland) using the BRS/Search information retrieval software. The subscription method for end-users--i.e., annual fee entitles user to unlimited access to database, document provision, and printed awareness…

  14. NoSQL database scaling

    OpenAIRE

    Žardin, Norbert

    2017-01-01

    NoSQL database scaling is a decision, where system resources or financial expenses are traded for database performance or other benefits. By scaling a database, database performance and resource usage might increase or decrease, such changes might have a negative impact on an application that uses the database. In this work it is analyzed how database scaling affect database resource usage and performance. As a results, calculations are acquired, using which database scaling types and differe...

  15. Mycobacteriophage genome database.

    Science.gov (United States)

    Joseph, Jerrine; Rajendran, Vasanthi; Hassan, Sameer; Kumar, Vanaja

    2011-01-01

    Mycobacteriophage genome database (MGDB) is an exclusive repository of the 64 completely sequenced mycobacteriophages with annotated information. It is a comprehensive compilation of the various gene parameters captured from several databases pooled together to empower mycobacteriophage researchers. The MGDB (Version No.1.0) comprises of 6086 genes from 64 mycobacteriophages classified into 72 families based on ACLAME database. Manual curation was aided by information available from public databases which was enriched further by analysis. Its web interface allows browsing as well as querying the classification. The main objective is to collect and organize the complexity inherent to mycobacteriophage protein classification in a rational way. The other objective is to browse the existing and new genomes and describe their functional annotation. The database is available for free at http://mpgdb.ibioinformatics.org/mpgdb.php.

  16. Integrated Radiation Analysis and Design Tools

    Data.gov (United States)

    National Aeronautics and Space Administration — The Integrated Radiation Analysis and Design Tools (IRADT) Project develops and maintains an integrated tool set that collects the current best practices, databases,...

  17. Database Access through Java Technologies

    Directory of Open Access Journals (Sweden)

    Nicolae MERCIOIU

    2010-09-01

    Full Text Available As a high level development environment, the Java technologies offer support to the development of distributed applications, independent of the platform, providing a robust set of methods to access the databases, used to create software components on the server side, as well as on the client side. Analyzing the evolution of Java tools to access data, we notice that these tools evolved from simple methods that permitted the queries, the insertion, the update and the deletion of the data to advanced implementations such as distributed transactions, cursors and batch files. The client-server architectures allows through JDBC (the Java Database Connectivity the execution of SQL (Structured Query Language instructions and the manipulation of the results in an independent and consistent manner. The JDBC API (Application Programming Interface creates the level of abstractization needed to allow the call of SQL queries to any DBMS (Database Management System. In JDBC the native driver and the ODBC (Open Database Connectivity-JDBC bridge and the classes and interfaces of the JDBC API will be described. The four steps needed to build a JDBC driven application are presented briefly, emphasizing on the way each step has to be accomplished and the expected results. In each step there are evaluations on the characteristics of the database systems and the way the JDBC programming interface adapts to each one. The data types provided by SQL2 and SQL3 standards are analyzed by comparison with the Java data types, emphasizing on the discrepancies between those and the SQL types, but also the methods that allow the conversion between different types of data through the methods of the ResultSet object. Next, starting from the metadata role and studying the Java programming interfaces that allow the query of result sets, we will describe the advanced features of the data mining with JDBC. As alternative to result sets, the Rowsets add new functionalities that

  18. Incident Information Management Tool

    CERN Document Server

    Pejovic, Vladimir

    2015-01-01

    Flaws of\tcurrent incident information management at CMS and CERN\tare discussed. A new data\tmodel for future incident database is\tproposed and briefly described. Recently developed draft version of GIS-­‐based tool for incident tracking is presented.

  19. DataSpread: Unifying Databases and Spreadsheets.

    Science.gov (United States)

    Bendre, Mangesh; Sun, Bofan; Zhang, Ding; Zhou, Xinyan; Chang, Kevin ChenChuan; Parameswaran, Aditya

    2015-08-01

    Spreadsheet software is often the tool of choice for ad-hoc tabular data management, processing, and visualization, especially on tiny data sets. On the other hand, relational database systems offer significant power, expressivity, and efficiency over spreadsheet software for data management, while lacking in the ease of use and ad-hoc analysis capabilities. We demonstrate DataSpread, a data exploration tool that holistically unifies databases and spreadsheets. It continues to offer a Microsoft Excel-based spreadsheet front-end, while in parallel managing all the data in a back-end database, specifically, PostgreSQL. DataSpread retains all the advantages of spreadsheets, including ease of use, ad-hoc analysis and visualization capabilities, and a schema-free nature, while also adding the advantages of traditional relational databases, such as scalability and the ability to use arbitrary SQL to import, filter, or join external or internal tables and have the results appear in the spreadsheet. DataSpread needs to reason about and reconcile differences in the notions of schema, addressing of cells and tuples, and the current "pane" (which exists in spreadsheets but not in traditional databases), and support data modifications at both the front-end and the back-end. Our demonstration will center on our first and early prototype of the DataSpread, and will give the attendees a sense for the enormous data exploration capabilities offered by unifying spreadsheets and databases.

  20. Database Description - SKIP Stemcell Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us SKIP Stemcell Database Database Description General information of database Database name SKIP Stemcell Database...rsity Journal Search: Contact address http://www.skip.med.keio.ac.jp/en/contact/ Database classification Human Genes and Diseases Dat...abase classification Stemcell Article Organism Taxonomy Name: Homo sapiens Taxonomy ID: 9606 Database...ks: Original website information Database maintenance site Center for Medical Genetics, School of medicine, ...lable Web services Not available URL of Web services - Need for user registration Not available About This Database Database

  1. Immune epitope database analysis resource (IEDB-AR)

    DEFF Research Database (Denmark)

    Zhang, Qing; Wang, Peng; Kim, Yohan

    2008-01-01

    We present a new release of the immune epitope database analysis resource (IEDB-AR, http://tools.immuneepitope.org), a repository of web-based tools for the prediction and analysis of immune epitopes. New functionalities have been added to most of the previously implemented tools, and a total...

  2. Why and How to Benchmark XML Databases

    NARCIS (Netherlands)

    A.R. Schmidt; F. Waas; M.L. Kersten (Martin); D. Florescu; M.J. Carey; I. Manolescu; R. Busse

    2001-01-01

    textabstractBenchmarks belong to the very standard repertory of tools deployed in database development. Assessing the capabilities of a system, analyzing actual and potential bottlenecks, and, naturally, comparing the pros and cons of different systems architectures have become indispensable tasks

  3. SPECIES DATABASES AND THE BIOINFORMATICS REVOLUTION.

    Science.gov (United States)

    Biological databases are having a growth spurt. Much of this results from research in genetics and biodiversity, coupled with fast-paced developments in information technology. The revolution in bioinformatics, defined by Sugden and Pennisi (2000) as the "tools and techniques for...

  4. Database resources for the tuberculosis community.

    Science.gov (United States)

    Lew, Jocelyne M; Mao, Chunhong; Shukla, Maulik; Warren, Andrew; Will, Rebecca; Kuznetsov, Dmitry; Xenarios, Ioannis; Robertson, Brian D; Gordon, Stephen V; Schnappinger, Dirk; Cole, Stewart T; Sobral, Bruno

    2013-01-01

    Access to online repositories for genomic and associated "-omics" datasets is now an essential part of everyday research activity. It is important therefore that the Tuberculosis community is aware of the databases and tools available to them online, as well as for the database hosts to know what the needs of the research community are. One of the goals of the Tuberculosis Annotation Jamboree, held in Washington DC on March 7th-8th 2012, was therefore to provide an overview of the current status of three key Tuberculosis resources, TubercuList (tuberculist.epfl.ch), TB Database (www.tbdb.org), and Pathosystems Resource Integration Center (PATRIC, www.patricbrc.org). Here we summarize some key updates and upcoming features in TubercuList, and provide an overview of the PATRIC site and its online tools for pathogen RNA-Seq analysis. Copyright © 2012 Elsevier Ltd. All rights reserved.

  5. Hazard Analysis Database Report

    Energy Technology Data Exchange (ETDEWEB)

    GAULT, G.W.

    1999-10-13

    The Hazard Analysis Database was developed in conjunction with the hazard analysis activities conducted in accordance with DOE-STD-3009-94, Preparation Guide for US Department of Energy Nonreactor Nuclear Facility Safety Analysis Reports, for the Tank Waste Remediation System (TWRS) Final Safety Analysis Report (FSAR). The FSAR is part of the approved TWRS Authorization Basis (AB). This document describes, identifies, and defines the contents and structure of the TWRS FSAR Hazard Analysis Database and documents the configuration control changes made to the database. The TWRS Hazard Analysis Database contains the collection of information generated during the initial hazard evaluations and the subsequent hazard and accident analysis activities. The database supports the preparation of Chapters 3,4, and 5 of the TWRS FSAR and the USQ process and consists of two major, interrelated data sets: (1) Hazard Evaluation Database--Data from the results of the hazard evaluations; and (2) Hazard Topography Database--Data from the system familiarization and hazard identification.

  6. The production phase model as a tool for analysing and structuring the database of an operation management system; Das Phasenmodell der Produktion als ein Werkzeug fuer Analyse und Strukturierung der Datenbasis eines Betriebsmanagementsystems

    Energy Technology Data Exchange (ETDEWEB)

    Rauprich, G.; Polke, B.

    1997-12-31

    This paper presents a process analysis which was carried out with the aid of a phase model for the purpose of supporting the start-up phase of an operation management system. Beside providing a functional structure for the database this process analysis permits a functional and consistent representation of the process at as crude or detailed a level as desired. In this way the phase model supplies a functional model of the process which serves the purposes of both the process control and the operation control level. Once the phase model has been created it largely only depends on the question being asked which level of detail and what properties of the relevant process elements and material and energy flows are used. [Deutsch] Eine mit Hilfe des Phasenmodells durchgefuehrte Prozessanalyse unterstuetzt die Einfuehrungsphase eines Betriebsmanagementsystems. Sie gibt eine funktionale Struktur der Datenbank vor und erlaubt darueberhinaus auf der Ebene des Betriebsmanagementsystems eine funktionale, konsistente, beliebig grobe oder feine detaillierte Darstellung des Prozesses. Die Phasenmodellierung liefert damit sowohl fuer die Prozessleitebene als auch fuer die Betriebsleitebene ein ganzheitliches, funktionales Modell des Prozesses. Wenn das Phasenmodell erst einmal erstellt ist, ist es im wesentlichen nur abhaengig von der Fragestellung, welche Detaillierungsebenen mit welchen Eigenschaften der relevanten Prozesselemente und Material-/Energiestroeme verwendet werden. (orig./RHM)

  7. LandIT Database

    DEFF Research Database (Denmark)

    Iftikhar, Nadeem; Pedersen, Torben Bach

    2010-01-01

    and reporting purposes. This paper presents the LandIT database; which is result of the LandIT project, which refers to an industrial collaboration project that developed technologies for communication and data integration between farming devices and systems. The LandIT database in principal is based...... on the ISOBUS standard; however the standard is extended with additional requirements, such as gradual data aggregation and flexible exchange of farming data. This paper describes the conceptual and logical schemas of the proposed database based on a real-life farming case study....

  8. JICST Factual Database(2)

    Science.gov (United States)

    Araki, Keisuke

    The computer programme, which builds atom-bond connection tables from nomenclatures, is developed. Chemical substances with their nomenclature and varieties of trivial names or experimental code numbers are inputted. The chemical structures of the database are stereospecifically stored and are able to be searched and displayed according to stereochemistry. Source data are from laws and regulations of Japan, RTECS of US and so on. The database plays a central role within the integrated fact database service of JICST and makes interrelational retrieval possible.

  9. 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.

  10. FCDD: A Database for Fruit Crops Diseases.

    Science.gov (United States)

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

    2014-01-01

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

  11. A Study on Graph Storage Database of NOSQL

    OpenAIRE

    Smita Agrawal; Atul Patel

    2016-01-01

    Big Data is used to store huge volume of both structured and unstructured data which is so large and is hard to process using current / traditional database tools and software technologies. The goal of Big Data Storage Management is to ensure a high level of data quality and availability for business intellect and big data analytics applications. Graph database which is not most popular NoSQL database compare to relational database yet but it is a most powerful NoSQL database which can handle...

  12. International Nuclear Safety Center (INSC) database

    International Nuclear Information System (INIS)

    Sofu, T.; Ley, H.; Turski, R.B.

    1997-01-01

    As an integral part of DOE's International Nuclear Safety Center (INSC) at Argonne National Laboratory, the INSC Database has been established to provide an interactively accessible information resource for the world's nuclear facilities and to promote free and open exchange of nuclear safety information among nations. The INSC Database is a comprehensive resource database aimed at a scope and level of detail suitable for safety analysis and risk evaluation for the world's nuclear power plants and facilities. It also provides an electronic forum for international collaborative safety research for the Department of Energy and its international partners. The database is intended to provide plant design information, material properties, computational tools, and results of safety analysis. Initial emphasis in data gathering is given to Soviet-designed reactors in Russia, the former Soviet Union, and Eastern Europe. The implementation is performed under the Oracle database management system, and the World Wide Web is used to serve as the access path for remote users. An interface between the Oracle database and the Web server is established through a custom designed Web-Oracle gateway which is used mainly to perform queries on the stored data in the database tables

  13. Development, deployment and operations of ATLAS databases

    International Nuclear Information System (INIS)

    Vaniachine, A. V.; von der Schmitt, J. G.

    2008-01-01

    In preparation for ATLAS data taking, a coordinated shift from development towards operations has occurred in ATLAS database activities. In addition to development and commissioning activities in databases, ATLAS is active in the development and deployment (in collaboration with the WLCG 3D project) of the tools that allow the worldwide distribution and installation of databases and related datasets, as well as the actual operation of this system on ATLAS multi-grid infrastructure. We describe development and commissioning of major ATLAS database applications for online and offline. We present the first scalability test results and ramp-up schedule over the initial LHC years of operations towards the nominal year of ATLAS running, when the database storage volumes are expected to reach 6.1 TB for the Tag DB and 1.0 TB for the Conditions DB. ATLAS database applications require robust operational infrastructure for data replication between online and offline at Tier-0, and for the distribution of the offline data to Tier-1 and Tier-2 computing centers. We describe ATLAS experience with Oracle Streams and other technologies for coordinated replication of databases in the framework of the WLCG 3D services

  14. Livestock Anaerobic Digester Database

    Science.gov (United States)

    The Anaerobic Digester Database provides basic information about anaerobic digesters on livestock farms in the United States, organized in Excel spreadsheets. It includes projects that are under construction, operating, or shut down.

  15. Toxicity Reference Database

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Toxicity Reference Database (ToxRefDB) contains approximately 30 years and $2 billion worth of animal studies. ToxRefDB allows scientists and the interested...

  16. Dissolution Methods Database

    Data.gov (United States)

    U.S. Department of Health & Human Services — For a drug product that does not have a dissolution test method in the United States Pharmacopeia (USP), the FDA Dissolution Methods Database provides information on...

  17. ARTI Refrigerant Database

    Energy Technology Data Exchange (ETDEWEB)

    Calm, J.M. [Calm (James M.), Great Falls, VA (United States)

    1994-05-27

    The Refrigerant Database consolidates and facilitates access to information to assist industry in developing equipment using alternative refrigerants. The underlying purpose is to accelerate phase out of chemical compounds of environmental concern.

  18. Marine Jurisdictions Database

    National Research Council Canada - National Science Library

    Goldsmith, Roger

    1998-01-01

    The purpose of this project was to take the data gathered for the Maritime Claims chart and create a Maritime Jurisdictions digital database suitable for use with oceanographic mission planning objectives...

  19. Medicaid CHIP ESPC Database

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Environmental Scanning and Program Characteristic (ESPC) Database is in a Microsoft (MS) Access format and contains Medicaid and CHIP data, for the 50 states and...

  20. Reach Address Database (RAD)

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Reach Address Database (RAD) stores the reach address of each Water Program feature that has been linked to the underlying surface water features (streams,...

  1. Household Products Database: Pesticides

    Science.gov (United States)

    ... of Products Manufacturers Ingredients About the Database FAQ Product ... control bulbs carpenter ants caterpillars crabgrass control deer dogs dogs/cats fertilizer w/insecticide fertilizer w/weed ...

  2. Mouse Phenome Database (MPD)

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Mouse Phenome Database (MPD) has characterizations of hundreds of strains of laboratory mice to facilitate translational discoveries and to assist in selection...

  3. Consumer Product Category Database

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Chemical and Product Categories database (CPCat) catalogs the use of over 40,000 chemicals and their presence in different consumer products. The chemical use...

  4. Drycleaner Database - Region 7

    Data.gov (United States)

    U.S. Environmental Protection Agency — THIS DATA ASSET NO LONGER ACTIVE: This is metadata documentation for the Region 7 Drycleaner Database (R7DryClnDB) which tracks all Region7 drycleaners who notify...

  5. National Assessment Database

    Data.gov (United States)

    U.S. Environmental Protection Agency — The National Assessment Database stores and tracks state water quality assessment decisions, Total Maximum Daily Loads (TMDLs) and other watershed plans designed to...

  6. 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.

  7. Rat Genome Database (RGD)

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Rat Genome Database (RGD) is a collaborative effort between leading research institutions involved in rat genetic and genomic research to collect, consolidate,...

  8. The Danish Urogynaecological Database

    DEFF Research Database (Denmark)

    Guldberg, Rikke; Brostrøm, Søren; Hansen, Jesper Kjær

    2013-01-01

    in the DugaBase from 1 January 2009 to 31 October 2010, using medical records as a reference. RESULTS: A total of 16,509 urogynaecological procedures were registered in the DugaBase by 31 December 2010. The database completeness has increased by calendar time, from 38.2 % in 2007 to 93.2 % in 2010 for public......INTRODUCTION AND HYPOTHESIS: The Danish Urogynaecological Database (DugaBase) is a nationwide clinical database established in 2006 to monitor, ensure and improve the quality of urogynaecological surgery. We aimed to describe its establishment and completeness and to validate selected variables....... This is the first study based on data from the DugaBase. METHODS: The database completeness was calculated as a comparison between urogynaecological procedures reported to the Danish National Patient Registry and to the DugaBase. Validity was assessed for selected variables from a random sample of 200 women...

  9. Danish Pancreatic Cancer Database

    DEFF Research Database (Denmark)

    Fristrup, Claus; Detlefsen, Sönke; Palnæs Hansen, Carsten

    2016-01-01

    : Death is monitored using data from the Danish Civil Registry. This registry monitors the survival status of the Danish population, and the registration is virtually complete. All data in the database are audited by all participating institutions, with respect to baseline characteristics, key indicators......AIM OF DATABASE: The Danish Pancreatic Cancer Database aims to prospectively register the epidemiology, diagnostic workup, diagnosis, treatment, and outcome of patients with pancreatic cancer in Denmark at an institutional and national level. STUDY POPULATION: Since May 1, 2011, all patients...... with microscopically verified ductal adenocarcinoma of the pancreas have been registered in the database. As of June 30, 2014, the total number of patients registered was 2,217. All data are cross-referenced with the Danish Pathology Registry and the Danish Patient Registry to ensure the completeness of registrations...

  10. Food Habits Database (FHDBS)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The NEFSC Food Habits Database has two major sources of data. The first, and most extensive, is the standard NEFSC Bottom Trawl Surveys Program. During these...

  11. Functionally Graded Materials Database

    Science.gov (United States)

    Kisara, Katsuto; Konno, Tomomi; Niino, Masayuki

    2008-02-01

    Functionally Graded Materials Database (hereinafter referred to as FGMs Database) was open to the society via Internet in October 2002, and since then it has been managed by the Japan Aerospace Exploration Agency (JAXA). As of October 2006, the database includes 1,703 research information entries with 2,429 researchers data, 509 institution data and so on. Reading materials such as "Applicability of FGMs Technology to Space Plane" and "FGMs Application to Space Solar Power System (SSPS)" were prepared in FY 2004 and 2005, respectively. The English version of "FGMs Application to Space Solar Power System (SSPS)" is now under preparation. This present paper explains the FGMs Database, describing the research information data, the sitemap and how to use it. From the access analysis, user access results and users' interests are discussed.

  12. Tethys Acoustic Metadata Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Tethys database houses the metadata associated with the acoustic data collection efforts by the Passive Acoustic Group. These metadata include dates, locations...

  13. NLCD 2011 database

    Data.gov (United States)

    U.S. Environmental Protection Agency — National Land Cover Database 2011 (NLCD 2011) is the most recent national land cover product created by the Multi-Resolution Land Characteristics (MRLC) Consortium....

  14. Medicare Coverage Database

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Medicare Coverage Database (MCD) contains all National Coverage Determinations (NCDs) and Local Coverage Determinations (LCDs), local articles, and proposed NCD...

  15. Household Products Database

    Data.gov (United States)

    U.S. Department of Health & Human Services — This database links over 4,000 consumer brands to health effects from Material Safety Data Sheets (MSDS) provided by the manufacturers and allows scientists and...

  16. Global Volcano Locations Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — NGDC maintains a database of over 1,500 volcano locations obtained from the Smithsonian Institution Global Volcanism Program, Volcanoes of the World publication. The...

  17. 1988 Spitak Earthquake Database

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The 1988 Spitak Earthquake database is an extensive collection of geophysical and geological data, maps, charts, images and descriptive text pertaining to the...

  18. Uranium Location Database

    Data.gov (United States)

    U.S. Environmental Protection Agency — A GIS compiled locational database in Microsoft Access of ~15,000 mines with uranium occurrence or production, primarily in the western United States. The metadata...

  19. INIST: databases reorientation

    International Nuclear Information System (INIS)

    Bidet, J.C.

    1995-01-01

    INIST is a CNRS (Centre National de la Recherche Scientifique) laboratory devoted to the treatment of scientific and technical informations and to the management of these informations compiled in a database. Reorientation of the database content has been proposed in 1994 to increase the transfer of research towards enterprises and services, to develop more automatized accesses to the informations, and to create a quality assurance plan. The catalog of publications comprises 5800 periodical titles (1300 for fundamental research and 4500 for applied research). A science and technology multi-thematic database will be created in 1995 for the retrieval of applied and technical informations. ''Grey literature'' (reports, thesis, proceedings..) and human and social sciences data will be added to the base by the use of informations selected in the existing GRISELI and Francis databases. Strong modifications are also planned in the thematic cover of Earth sciences and will considerably reduce the geological information content. (J.S.). 1 tab

  20. Fine Arts Database (FAD)

    Data.gov (United States)

    General Services Administration — The Fine Arts Database records information on federally owned art in the control of the GSA; this includes the location, current condition and information on artists.

  1. Kansas Cartographic Database (KCD)

    Data.gov (United States)

    Kansas Data Access and Support Center — The Kansas Cartographic Database (KCD) is an exact digital representation of selected features from the USGS 7.5 minute topographic map series. Features that are...

  2. Applications of GIS and database technologies to manage a Karst Feature Database

    Science.gov (United States)

    Gao, Y.; Tipping, R.G.; Alexander, E.C.

    2006-01-01

    This paper describes the management of a Karst Feature Database (KFD) in Minnesota. Two sets of applications in both GIS and Database Management System (DBMS) have been developed for the KFD of Minnesota. These applications were used to manage and to enhance the usability of the KFD. Structured Query Language (SQL) was used to manipulate transactions of the database and to facilitate the functionality of the user interfaces. The Database Administrator (DBA) authorized users with different access permissions to enhance the security of the database. Database consistency and recovery are accomplished by creating data logs and maintaining backups on a regular basis. The working database provides guidelines and management tools for future studies of karst features in Minnesota. The methodology of designing this DBMS is applicable to develop GIS-based databases to analyze and manage geomorphic and hydrologic datasets at both regional and local scales. The short-term goal of this research is to develop a regional KFD for the Upper Mississippi Valley Karst and the long-term goal is to expand this database to manage and study karst features at national and global scales.

  3. Database Replication Prototype

    OpenAIRE

    Vandewall, R.

    2000-01-01

    This report describes the design of a Replication Framework that facilitates the implementation and com-parison of database replication techniques. Furthermore, it discusses the implementation of a Database Replication Prototype and compares the performance measurements of two replication techniques based on the Atomic Broadcast communication primitive: pessimistic active replication and optimistic active replication. The main contributions of this report can be split into four parts....

  4. Database on Wind Characteristics

    DEFF Research Database (Denmark)

    Højstrup, J.; Ejsing Jørgensen, Hans; Lundtang Petersen, Erik

    1999-01-01

    his report describes the work and results of the project: Database on Wind Characteristics which was sponsered partly by the European Commision within the framework of JOULE III program under contract JOR3-CT95-0061......his report describes the work and results of the project: Database on Wind Characteristics which was sponsered partly by the European Commision within the framework of JOULE III program under contract JOR3-CT95-0061...

  5. ORACLE DATABASE SECURITY

    OpenAIRE

    Cristina-Maria Titrade

    2011-01-01

    This paper presents some security issues, namely security database system level, data level security, user-level security, user management, resource management and password management. Security is a constant concern in the design and database development. Usually, there are no concerns about the existence of security, but rather how large it should be. A typically DBMS has several levels of security, in addition to those offered by the operating system or network. Typically, a DBMS has user a...

  6. Database computing in HEP

    International Nuclear Information System (INIS)

    Day, C.T.; Loken, S.; MacFarlane, J.F.; May, E.; Lifka, D.; Lusk, E.; Price, L.E.; Baden, A.

    1992-01-01

    The major SSC experiments are expected to produce up to 1 Petabyte of data per year each. Once the primary reconstruction is completed by farms of inexpensive processors. I/O becomes a major factor in further analysis of the data. We believe that the application of database techniques can significantly reduce the I/O performed in these analyses. We present examples of such I/O reductions in prototype based on relational and object-oriented databases of CDF data samples

  7. Update History of This Database - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Trypanosomes Database Update History of This Database Date Update contents 2014/05/07 The co...ntact information is corrected. The features and manner of utilization of the database are corrected. 2014/02/04 Trypanosomes Databas...e English archive site is opened. 2011/04/04 Trypanosomes Database ( http://www.tan...paku.org/tdb/ ) is opened. About This Database Database Description Download Lice...nse Update History of This Database Site Policy | Contact Us Update History of This Database - Trypanosomes Database | LSDB Archive ...

  8. The ATLAS TAGS database distribution and management - Operational challenges of a multi-terabyte distributed database

    Energy Technology Data Exchange (ETDEWEB)

    Viegas, F; Nairz, A; Goossens, L [CERN, CH-1211 Geneve 23 (Switzerland); Malon, D; Cranshaw, J [Argonne National Laboratory, 9700 S. Cass Avenue, Argonne, IL 60439 (United States); Dimitrov, G [DESY, D-22603 Hamburg (Germany); Nowak, M; Gamboa, C [Brookhaven National Laboratory, PO Box 5000 Upton, NY 11973-5000 (United States); Gallas, E [University of Oxford, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH (United Kingdom); Wong, A [Triumf, 4004 Wesbrook Mall, Vancouver, BC, V6T 2A3 (Canada); Vinek, E [University of Vienna, Dr.-Karl-Lueger-Ring 1, 1010 Vienna (Austria)

    2010-04-01

    The TAG files store summary event quantities that allow a quick selection of interesting events. This data will be produced at a nominal rate of 200 Hz, and is uploaded into a relational database for access from websites and other tools. The estimated database volume is 6TB per year, making it the largest application running on the ATLAS relational databases, at CERN and at other voluntary sites. The sheer volume and high rate of production makes this application a challenge to data and resource management, in many aspects. This paper will focus on the operational challenges of this system. These include: uploading the data from files to the CERN's and remote sites' databases; distributing the TAG metadata that is essential to guide the user through event selection; controlling resource usage of the database, from the user query load to the strategy of cleaning and archiving of old TAG data.

  9. 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.

  10. The ATLAS TAGS database distribution and management - Operational challenges of a multi-terabyte distributed database

    International Nuclear Information System (INIS)

    Viegas, F; Nairz, A; Goossens, L; Malon, D; Cranshaw, J; Dimitrov, G; Nowak, M; Gamboa, C; Gallas, E; Wong, A; Vinek, E

    2010-01-01

    The TAG files store summary event quantities that allow a quick selection of interesting events. This data will be produced at a nominal rate of 200 Hz, and is uploaded into a relational database for access from websites and other tools. The estimated database volume is 6TB per year, making it the largest application running on the ATLAS relational databases, at CERN and at other voluntary sites. The sheer volume and high rate of production makes this application a challenge to data and resource management, in many aspects. This paper will focus on the operational challenges of this system. These include: uploading the data from files to the CERN's and remote sites' databases; distributing the TAG metadata that is essential to guide the user through event selection; controlling resource usage of the database, from the user query load to the strategy of cleaning and archiving of old TAG data.

  11. Database Description - TMFunction | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available sidue (or mutant) in a protein. The experimental data are collected from the literature both by searching th...the sequence database, UniProt, structural database, PDB, and literature database

  12. XML: James Webb Space Telescope Database Issues, Lessons, and Status

    Science.gov (United States)

    Detter, Ryan; Mooney, Michael; Fatig, Curtis

    2003-01-01

    This paper will present the current concept using extensible Markup Language (XML) as the underlying structure for the James Webb Space Telescope (JWST) database. The purpose of using XML is to provide a JWST database, independent of any portion of the ground system, yet still compatible with the various systems using a variety of different structures. The testing of the JWST Flight Software (FSW) started in 2002, yet the launch is scheduled for 2011 with a planned 5-year mission and a 5-year follow on option. The initial database and ground system elements, including the commands, telemetry, and ground system tools will be used for 19 years, plus post mission activities. During the Integration and Test (I&T) phases of the JWST development, 24 distinct laboratories, each geographically dispersed, will have local database tools with an XML database. Each of these laboratories database tools will be used for the exporting and importing of data both locally and to a central database system, inputting data to the database certification process, and providing various reports. A centralized certified database repository will be maintained by the Space Telescope Science Institute (STScI), in Baltimore, Maryland, USA. One of the challenges for the database is to be flexible enough to allow for the upgrade, addition or changing of individual items without effecting the entire ground system. Also, using XML should allow for the altering of the import and export formats needed by the various elements, tracking the verification/validation of each database item, allow many organizations to provide database inputs, and the merging of the many existing database processes into one central database structure throughout the JWST program. Many National Aeronautics and Space Administration (NASA) projects have attempted to take advantage of open source and commercial technology. Often this causes a greater reliance on the use of Commercial-Off-The-Shelf (COTS), which is often limiting

  13. 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.

  14. Database Description - RPSD | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name RPSD Alternative nam...e Rice Protein Structure Database DOI 10.18908/lsdba.nbdc00749-000 Creator Creator Name: Toshimasa Yamazaki ... Ibaraki 305-8602, Japan National Institute of Agrobiological Sciences Toshimasa Yamazaki E-mail : Databas...e classification Structure Databases - Protein structure Organism Taxonomy Name: Or...or name(s): Journal: External Links: Original website information Database maintenance site National Institu

  15. [Validation of interaction databases in psychopharmacotherapy].

    Science.gov (United States)

    Hahn, M; Roll, S C

    2018-03-01

    Drug-drug interaction databases are an important tool to increase drug safety in polypharmacy. There are several drug interaction databases available but it is unclear which one shows the best results and therefore increases safety for the user of the databases and the patients. So far, there has been no validation of German drug interaction databases. Validation of German drug interaction databases regarding the number of hits, mechanisms of drug interaction, references, clinical advice, and severity of the interaction. A total of 36 drug interactions which were published in the last 3-5 years were checked in 5 different databases. Besides the number of hits, it was also documented if the mechanism was correct, clinical advice was given, primary literature was cited, and the severity level of the drug-drug interaction was given. All databases showed weaknesses regarding the hit rate of the tested drug interactions, with a maximum of 67.7% hits. The highest score in this validation was achieved by MediQ with 104 out of 180 points. PsiacOnline achieved 83 points, arznei-telegramm® 58, ifap index® 54 and the ABDA-database 49 points. Based on this validation MediQ seems to be the most suitable databank for the field of psychopharmacotherapy. The best results in this comparison were achieved by MediQ but this database also needs improvement with respect to the hit rate so that the users can rely on the results and therefore increase drug therapy safety.

  16. A Sustainable Spacecraft Component Database Solution, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — Numerous spacecraft component databases have been developed to support NASA, DoD, and contractor design centers and design tools. Despite the clear utility of...

  17. Database Description - DGBY | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name DGBY Alternative name Database...EL: +81-29-838-8066 E-mail: Database classification Microarray Data and other Gene Expression Databases Orga...nism Taxonomy Name: Saccharomyces cerevisiae Taxonomy ID: 4932 Database descripti...-called phenomics). We uploaded these data on this website which is designated DGBY(Database for Gene expres...ma J, Ando A, Takagi H. Journal: Yeast. 2008 Mar;25(3):179-90. External Links: Original website information Database

  18. Visual Querying in Chemical Databases using SMARTS Patterns

    OpenAIRE

    Šípek, Vojtěch

    2014-01-01

    The purpose of this thesis is to create framework for visual querying in chemical databases which will be implemented as a web application. By using graphical editor, which is a part of client side, the user creates queries which are translated into chemical query language SMARTS. This query is parsed on the application server which is connected to the chemical database. This framework also contains tooling for creating the database and index structure above it. 1

  19. Simplified validation of borderline hits of database searches

    OpenAIRE

    Thomas, Henrik; Shevchenko, Andrej

    2008-01-01

    Along with unequivocal hits produced by matching multiple MS/MS spectra to database sequences, LC-MS/MS analysis often yields a large number of hits of borderline statistical confidence. To simplify their validation, we propose to use rapid de novo interpretation of all acquired MS/MS spectra and, with the help of a simple software tool, display the candidate sequences together with each database search hit. We demonstrate that comparing hit database sequences and independent de novo interpre...

  20. The World Bacterial Biogeography and Biodiversity through Databases: A Case Study of NCBI Nucleotide Database and GBIF Database

    Directory of Open Access Journals (Sweden)

    Okba Selama

    2013-01-01

    Full Text Available Databases are an essential tool and resource within the field of bioinformatics. The primary aim of this study was to generate an overview of global bacterial biodiversity and biogeography using available data from the two largest public online databases, NCBI Nucleotide and GBIF. The secondary aim was to highlight the contribution each geographic area has to each database. The basis for data analysis of this study was the metadata provided by both databases, mainly, the taxonomy and the geographical area origin of isolation of the microorganism (record. These were directly obtained from GBIF through the online interface, while E-utilities and Python were used in combination with a programmatic web service access to obtain data from the NCBI Nucleotide Database. Results indicate that the American continent, and more specifically the USA, is the top contributor, while Africa and Antarctica are less well represented. This highlights the imbalance of exploration within these areas rather than any reduction in biodiversity. This study describes a novel approach to generating global scale patterns of bacterial biodiversity and biogeography and indicates that the Proteobacteria are the most abundant and widely distributed phylum within both databases.

  1. Human Performance Event Database

    International Nuclear Information System (INIS)

    Trager, E. A.

    1998-01-01

    The purpose of this paper is to describe several aspects of a Human Performance Event Database (HPED) that is being developed by the Nuclear Regulatory Commission. These include the background, the database structure and basis for the structure, the process for coding and entering event records, the results of preliminary analyses of information in the database, and plans for the future. In 1992, the Office for Analysis and Evaluation of Operational Data (AEOD) within the NRC decided to develop a database for information on human performance during operating events. The database was needed to help classify and categorize the information to help feedback operating experience information to licensees and others. An NRC interoffice working group prepared a list of human performance information that should be reported for events and the list was based on the Human Performance Investigation Process (HPIP) that had been developed by the NRC as an aid in investigating events. The structure of the HPED was based on that list. The HPED currently includes data on events described in augmented inspection team (AIT) and incident investigation team (IIT) reports from 1990 through 1996, AEOD human performance studies from 1990 through 1993, recent NRR special team inspections, and licensee event reports (LERs) that were prepared for the events. (author)

  2. The CUTLASS database facilities

    International Nuclear Information System (INIS)

    Jervis, P.; Rutter, P.

    1988-09-01

    The enhancement of the CUTLASS database management system to provide improved facilities for data handling is seen as a prerequisite to its effective use for future power station data processing and control applications. This particularly applies to the larger projects such as AGR data processing system refurbishments, and the data processing systems required for the new Coal Fired Reference Design stations. In anticipation of the need for improved data handling facilities in CUTLASS, the CEGB established a User Sub-Group in the early 1980's to define the database facilities required by users. Following the endorsement of the resulting specification and a detailed design study, the database facilities have been implemented as an integral part of the CUTLASS system. This paper provides an introduction to the range of CUTLASS Database facilities, and emphasises the role of Database as the central facility around which future Kit 1 and (particularly) Kit 6 CUTLASS based data processing and control systems will be designed and implemented. (author)

  3. Database Description - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Trypanosomes Database Database Description General information of database Database name Trypanosomes Database...stitute of Genetics Research Organization of Information and Systems Yata 1111, Mishima, Shizuoka 411-8540, JAPAN E mail: Database...y Name: Trypanosoma Taxonomy ID: 5690 Taxonomy Name: Homo sapiens Taxonomy ID: 9606 Database description The... Article title: Author name(s): Journal: External Links: Original website information Database maintenance s...DB (Protein Data Bank) KEGG PATHWAY Database DrugPort Entry list Available Query search Available Web servic

  4. Are ‘Agent’ Exclusion Clauses a Legitimate Application of the EU Database Directive?

    Directory of Open Access Journals (Sweden)

    Jimi Groom

    2004-03-01

    Full Text Available This article explores the implications of the implementation of the European Database Directive in the area of autonomous agents and the use of exclusion tools in the part of database owners to stop agents accessing their works.

  5. Are Agent Exclusion Clauses a Legitimate Application of the EU Database Directive?

    OpenAIRE

    Jimi Groom

    2004-01-01

    This article explores the implications of the implementation of the European Database Directive in the area of autonomous agents and the use of exclusion tools in the part of database owners to stop agents accessing their works.

  6. NREL: U.S. Life Cycle Inventory Database Home Page

    Science.gov (United States)

    impact. This database provides individual gate-to-gate, cradle-to-gate and cradle-to-grave accounting of up-to-date, critically reviewed LCI data Support the expanded use of LCA as an environmental decision -making tool Maintain compatibility with international LCI databases Provide exceptional data

  7. Curve collection, extension of databases

    International Nuclear Information System (INIS)

    Gillemot, F.

    1992-01-01

    Full text: Databases: generally calculated data only. The original measurements: diagrams. Information loss between them Expensive research eg. irradiation, aging, creep etc. Original curves should be stored for reanalysing. The format of the stored curves: a. Data in ASCII files, only numbers b. Other information in strings in a second file Same name, but different extension. Extensions shows the type of the test and the type of the file. EXAMPLES. TEN is tensile information, TED is tensile data, CHN is Charpy informations, CHD is Charpy data. Storing techniques: digitalised measurements, digitalising old curves stored on paper. Use: making catalogues, reanalysing, comparison with new data. Tools: mathematical software packages like quattro, genplot, exel, mathcad, qbasic, pascal, fortran, mathlab, grapher etc. (author)

  8. Development of the geometry database for the CBM experiment

    Science.gov (United States)

    Akishina, E. P.; Alexandrov, E. I.; Alexandrov, I. N.; Filozova, I. A.; Friese, V.; Ivanov, V. V.

    2018-01-01

    The paper describes the current state of the Geometry Database (Geometry DB) for the CBM experiment. The main purpose of this database is to provide convenient tools for: (1) managing the geometry modules; (2) assembling various versions of the CBM setup as a combination of geometry modules and additional files. The CBM users of the Geometry DB may use both GUI (Graphical User Interface) and API (Application Programming Interface) tools for working with it.

  9. The LHCb configuration database

    CERN Document Server

    Abadie, Lana; Gaspar, Clara; Jacobsson, Richard; Jost, Beat; Neufeld, Niko

    2005-01-01

    The Experiment Control System (ECS) will handle the monitoring, configuration and operation of all the LHCb experimental equipment. All parameters required to configure electronics equipment under the control of the ECS will reside in a configuration database. The database will contain two kinds of information: 1.\tConfiguration properties about devices such as hardware addresses, geographical location, and operational parameters associated with particular running modes (dynamic properties). 2.\tConnectivity between devices : this consists of describing the output and input connections of a device (static properties). The representation of these data using tables must be complete so that it can provide all the required information to the ECS and must cater for all the subsystems. The design should also guarantee a fast response time, even if a query results in a large volume of data being loaded from the database into the ECS. To fulfil these constraints, we apply the following methodology: Determine from the d...

  10. Database Application Schema Forensics

    Directory of Open Access Journals (Sweden)

    Hector Quintus Beyers

    2014-12-01

    Full Text Available The application schema layer of a Database Management System (DBMS can be modified to deliver results that may warrant a forensic investigation. Table structures can be corrupted by changing the metadata of a database or operators of the database can be altered to deliver incorrect results when used in queries. This paper will discuss categories of possibilities that exist to alter the application schema with some practical examples. Two forensic environments are introduced where a forensic investigation can take place in. Arguments are provided why these environments are important. Methods are presented how these environments can be achieved for the application schema layer of a DBMS. A process is proposed on how forensic evidence should be extracted from the application schema layer of a DBMS. The application schema forensic evidence identification process can be applied to a wide range of forensic settings.

  11. Tibetan Magmatism Database

    Science.gov (United States)

    Chapman, James B.; Kapp, Paul

    2017-11-01

    A database containing previously published geochronologic, geochemical, and isotopic data on Mesozoic to Quaternary igneous rocks in the Himalayan-Tibetan orogenic system are presented. The database is intended to serve as a repository for new and existing igneous rock data and is publicly accessible through a web-based platform that includes an interactive map and data table interface with search, filtering, and download options. To illustrate the utility of the database, the age, location, and ɛHft composition of magmatism from the central Gangdese batholith in the southern Lhasa terrane are compared. The data identify three high-flux events, which peak at 93, 50, and 15 Ma. They are characterized by inboard arc migration and a temporal and spatial shift to more evolved isotopic compositions.

  12. Database Vs Data Warehouse

    Directory of Open Access Journals (Sweden)

    2007-01-01

    Full Text Available Data warehouse technology includes a set of concepts and methods that offer the users useful information for decision making. The necessity to build a data warehouse arises from the necessity to improve the quality of information in the organization. The date proceeding from different sources, having a variety of forms - both structured and unstructured, are filtered according to business rules and are integrated in a single large data collection. Using informatics solutions, managers have understood that data stored in operational systems - including databases, are an informational gold mine that must be exploited. Data warehouses have been developed to answer the increasing demands for complex analysis, which could not be properly achieved with operational databases. The present paper emphasizes some of the criteria that information application developers can use in order to choose between a database solution or a data warehouse one.

  13. The Danish Sarcoma Database

    DEFF Research Database (Denmark)

    Jørgensen, Peter Holmberg; Lausten, Gunnar Schwarz; Pedersen, Alma B

    2016-01-01

    AIM: The aim of the database is to gather information about sarcomas treated in Denmark in order to continuously monitor and improve the quality of sarcoma treatment in a local, a national, and an international perspective. STUDY POPULATION: Patients in Denmark diagnosed with a sarcoma, both...... skeletal and ekstraskeletal, are to be registered since 2009. MAIN VARIABLES: The database contains information about appearance of symptoms; date of receiving referral to a sarcoma center; date of first visit; whether surgery has been performed elsewhere before referral, diagnosis, and treatment; tumor...... of Diseases - tenth edition codes and TNM Classification of Malignant Tumours, and date of death (after yearly coupling to the Danish Civil Registration System). Data quality and completeness are currently secured. CONCLUSION: The Danish Sarcoma Database is population based and includes sarcomas occurring...

  14. Danish Gynecological Cancer Database

    DEFF Research Database (Denmark)

    Sørensen, Sarah Mejer; Bjørn, Signe Frahm; Jochumsen, Kirsten Marie

    2016-01-01

    AIM OF DATABASE: The Danish Gynecological Cancer Database (DGCD) is a nationwide clinical cancer database and its aim is to monitor the treatment quality of Danish gynecological cancer patients, and to generate data for scientific purposes. DGCD also records detailed data on the diagnostic measures...... data forms as follows: clinical data, surgery, pathology, pre- and postoperative care, complications, follow-up visits, and final quality check. DGCD is linked with additional data from the Danish "Pathology Registry", the "National Patient Registry", and the "Cause of Death Registry" using the unique...... Danish personal identification number (CPR number). DESCRIPTIVE DATA: Data from DGCD and registers are available online in the Statistical Analysis Software portal. The DGCD forms cover almost all possible clinical variables used to describe gynecological cancer courses. The only limitation...

  15. The Danish Depression Database

    DEFF Research Database (Denmark)

    Videbech, Poul Bror Hemming; Deleuran, Anette

    2016-01-01

    AIM OF DATABASE: The purpose of the Danish Depression Database (DDD) is to monitor and facilitate the improvement of the quality of the treatment of depression in Denmark. Furthermore, the DDD has been designed to facilitate research. STUDY POPULATION: Inpatients as well as outpatients...... with depression, aged above 18 years, and treated in the public psychiatric hospital system were enrolled. MAIN VARIABLES: Variables include whether the patient has been thoroughly somatically examined and has been interviewed about the psychopathology by a specialist in psychiatry. The Hamilton score as well...... as an evaluation of the risk of suicide are measured before and after treatment. Whether psychiatric aftercare has been scheduled for inpatients and the rate of rehospitalization are also registered. DESCRIPTIVE DATA: The database was launched in 2011. Every year since then ~5,500 inpatients and 7,500 outpatients...

  16. 600 MW nuclear power database

    International Nuclear Information System (INIS)

    Cao Ruiding; Chen Guorong; Chen Xianfeng; Zhang Yishu

    1996-01-01

    600 MW Nuclear power database, based on ORACLE 6.0, consists of three parts, i.e. nuclear power plant database, nuclear power position database and nuclear power equipment database. In the database, there are a great deal of technique data and picture of nuclear power, provided by engineering designing units and individual. The database can give help to the designers of nuclear power

  17. C# Database Basics

    CERN Document Server

    Schmalz, Michael

    2012-01-01

    Working with data and databases in C# certainly can be daunting if you're coming from VB6, VBA, or Access. With this hands-on guide, you'll shorten the learning curve considerably as you master accessing, adding, updating, and deleting data with C#-basic skills you need if you intend to program with this language. No previous knowledge of C# is necessary. By following the examples in this book, you'll learn how to tackle several database tasks in C#, such as working with SQL Server, building data entry forms, and using data in a web service. The book's code samples will help you get started

  18. Danish Palliative Care Database

    DEFF Research Database (Denmark)

    Grønvold, Mogens; Adsersen, Mathilde; Hansen, Maiken Bang

    2016-01-01

    Aims: The aim of the Danish Palliative Care Database (DPD) is to monitor, evaluate, and improve the clinical quality of specialized palliative care (SPC) (ie, the activity of hospital-based palliative care teams/departments and hospices) in Denmark. Study population: The study population is all...... patients were registered in DPD during the 5 years 2010–2014. Of those registered, 96% had cancer. Conclusion: DPD is a national clinical quality database for SPC having clinically relevant variables and high data and patient completeness....

  19. The Danish Anaesthesia Database

    DEFF Research Database (Denmark)

    Antonsen, Kristian; Rosenstock, Charlotte Vallentin; Lundstrøm, Lars Hyldborg

    2016-01-01

    AIM OF DATABASE: The aim of the Danish Anaesthesia Database (DAD) is the nationwide collection of data on all patients undergoing anesthesia. Collected data are used for quality assurance, quality development, and serve as a basis for research projects. STUDY POPULATION: The DAD was founded in 2004....... In addition, an annual DAD report is a benchmark for departments nationwide. CONCLUSION: The DAD is covering the anesthetic process for the majority of patients undergoing anesthesia in Denmark. Data in the DAD are increasingly used for both quality and research projects....

  20. MARKS ON ART database

    DEFF Research Database (Denmark)

    van Vlierden, Marieke; Wadum, Jørgen; Wolters, Margreet

    2016-01-01

    Mestermærker, monogrammer og kvalitetsmærker findes ofte præget eller stemplet på kunstværker fra 1300-1700. En illustreret database med denne typer mræker er under etablering på Nederlands Kunsthistoriske Institut (RKD) i Den Haag.......Mestermærker, monogrammer og kvalitetsmærker findes ofte præget eller stemplet på kunstværker fra 1300-1700. En illustreret database med denne typer mræker er under etablering på Nederlands Kunsthistoriske Institut (RKD) i Den Haag....

  1. The magnet database system

    International Nuclear Information System (INIS)

    Baggett, P.; Delagi, N.; Leedy, R.; Marshall, W.; Robinson, S.L.; Tompkins, J.C.

    1991-01-01

    This paper describes the current status of MagCom, a central database of SSC magnet information that is available to all magnet scientists via network connections. The database has been designed to contain the specifications and measured values of important properties for major materials, plus configuration information (specifying which individual items were used in each cable, coil, and magnet) and the test results on completed magnets. These data will help magnet scientists to track and control the production process and to correlate the performance of magnets with the properties of their constituents

  2. Yucca Mountain digital database

    International Nuclear Information System (INIS)

    Daudt, C.R.; Hinze, W.J.

    1992-01-01

    This paper discusses the Yucca Mountain Digital Database (DDB) which is a digital, PC-based geographical database of geoscience-related characteristics of the proposed high-level waste (HLW) repository site of Yucca Mountain, Nevada. It was created to provide the US Nuclear Regulatory Commission's (NRC) Advisory Committee on Nuclear Waste (ACNW) and its staff with a visual perspective of geological, geophysical, and hydrological features at the Yucca Mountain site as discussed in the Department of Energy's (DOE) pre-licensing reports

  3. ARTI refrigerant database

    Energy Technology Data Exchange (ETDEWEB)

    Calm, J.M.

    1998-03-15

    The Refrigerant Database is an information system on alternative refrigerants, associated lubricants, and their use in air conditioning and refrigeration. It consolidates and facilitates access to thermophysical properties, compatibility, environmental, safety, application and other information. It provides corresponding information on older refrigerants, to assist manufacturers and those using alternative refrigerants, to make comparisons and determine differences. The underlying purpose is to accelerate phase out of chemical compounds of environmental concern. The database provides bibliographic citations and abstracts for publications that may be useful in research and design of air conditioning and refrigeration equipment. It also references documents addressing compatibility of refrigerants and lubricants with other materials.

  4. Surgery Risk Assessment (SRA) Database

    Data.gov (United States)

    Department of Veterans Affairs — The Surgery Risk Assessment (SRA) database is part of the VA Surgical Quality Improvement Program (VASQIP). This database contains assessments of selected surgical...

  5. Accessing and using chemical databases

    DEFF Research Database (Denmark)

    Nikolov, Nikolai Georgiev; Pavlov, Todor; Niemelä, Jay Russell

    2013-01-01

    Computer-based representation of chemicals makes it possible to organize data in chemical databases-collections of chemical structures and associated properties. Databases are widely used wherever efficient processing of chemical information is needed, including search, storage, retrieval......, and dissemination. Structure and functionality of chemical databases are considered. The typical kinds of information found in a chemical database are considered-identification, structural, and associated data. Functionality of chemical databases is presented, with examples of search and access types. More details...... are included about the OASIS database and platform and the Danish (Q)SAR Database online. Various types of chemical database resources are discussed, together with a list of examples....

  6. Federated Database Services for Wind Tunnel Experiment Workflows

    Directory of Open Access Journals (Sweden)

    A. Paventhan

    2006-01-01

    Full Text Available Enabling the full life cycle of scientific and engineering workflows requires robust middleware and services that support effective data management, near-realtime data movement and custom data processing. Many existing solutions exploit the database as a passive metadata catalog. In this paper, we present an approach that makes use of federation of databases to host data-centric wind tunnel application workflows. The user is able to compose customized application workflows based on database services. We provide a reference implementation that leverages typical business tools and technologies: Microsoft SQL Server for database services and Windows Workflow Foundation for workflow services. The application data and user's code are both hosted in federated databases. With the growing interest in XML Web Services in scientific Grids, and with databases beginning to support native XML types and XML Web services, we can expect the role of databases in scientific computation to grow in importance.

  7. License - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available switchLanguage; BLAST Search Image Search Home About Archive Update History Data List Contact us Trypanoso... Attribution-Share Alike 2.1 Japan . If you use data from this database, please be sure attribute this database as follows: Trypanoso...nse Update History of This Database Site Policy | Contact Us License - Trypanosomes Database | LSDB Archive ...

  8. 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)

  9. Teaching Historians with Databases.

    Science.gov (United States)

    Burton, Vernon

    1993-01-01

    Asserts that, although pressures to publish have detracted from the quality of teaching at the college level, recent innovations in educational technology have created opportunities for instructional improvement. Describes the use of computer-assisted instruction and databases in college-level history courses. (CFR)

  10. Literature database aid

    International Nuclear Information System (INIS)

    Wanderer, J.A.

    1991-01-01

    The booklet is to help with the acquisition of original literature either after a conventional literature search or in particular after a database search. It bridges the gap between abbreviated (short) and original (long) titel. This, together with information on the holdings of technical/scientific libraries, facilitates document delivery. 1500 short titles are listed alphabetically. (orig.) [de

  11. Oversigt over databaser

    DEFF Research Database (Denmark)

    Krogh Graversen, Brian

    Dette er en oversigt over registre, som kan anvendes til at beslyse situationen og udviklingen på det sociale område. Oversigten er anden fase i et dataprojekt, som har til formål at etablere en database, som kan danne basis for en løbende overvågning, udredning, evaluering og forskning på det...

  12. Database Programming Languages

    DEFF Research Database (Denmark)

    This volume contains the proceedings of the 11th International Symposium on Database Programming Languages (DBPL 2007), held in Vienna, Austria, on September 23-24, 2007. DBPL 2007 was one of 15 meetings co-located with VLBD (the International Conference on Very Large Data Bases). DBPL continues...

  13. From database to normbase

    NARCIS (Netherlands)

    Stamper, R.K.; Liu, Kecheng; Liu, K.; Kolkman, M.; Kolkman, M.; Klarenberg, P.; Ades, Y.; van Slooten, C.; van Slooten, F.; Ades, Y.

    1991-01-01

    After the database concept, we are ready for the normbase concept. The object is to decouple organizational and technical knowledge that are now mixed inextricably together in the application programs we write today. The underlying principle is to find a way of specifying a social system as a system

  14. Database Description - SSBD | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available base Description General information of database Database name SSBD Alternative nam...ss 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, Japan, RIKEN Quantitative Biology Center Shuichi Onami E-mail: Database... classification Other Molecular Biology Databases Database classification Dynamic databa...elegans Taxonomy ID: 6239 Taxonomy Name: Escherichia coli Taxonomy ID: 562 Database description Systems Scie...i Onami Journal: Bioinformatics/April, 2015/Volume 31, Issue 7 External Links: Original website information Database

  15. Database Description - GETDB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available abase Description General information of database Database name GETDB Alternative n...ame Gal4 Enhancer Trap Insertion Database DOI 10.18908/lsdba.nbdc00236-000 Creator Creator Name: Shigeo Haya... Chuo-ku, Kobe 650-0047 Tel: +81-78-306-3185 FAX: +81-78-306-3183 E-mail: Database classification Expression... Invertebrate genome database Organism Taxonomy Name: Drosophila melanogaster Taxonomy ID: 7227 Database des...riginal website information Database maintenance site Drosophila Genetic Resource

  16. JDD, Inc. Database

    Science.gov (United States)

    Miller, David A., Jr.

    2004-01-01

    JDD Inc, is a maintenance and custodial contracting company whose mission is to provide their clients in the private and government sectors "quality construction, construction management and cleaning services in the most efficient and cost effective manners, (JDD, Inc. Mission Statement)." This company provides facilities support for Fort Riley in Fo,rt Riley, Kansas and the NASA John H. Glenn Research Center at Lewis Field here in Cleveland, Ohio. JDD, Inc. is owned and operated by James Vaughn, who started as painter at NASA Glenn and has been working here for the past seventeen years. This summer I worked under Devan Anderson, who is the safety manager for JDD Inc. in the Logistics and Technical Information Division at Glenn Research Center The LTID provides all transportation, secretarial, security needs and contract management of these various services for the center. As a safety manager, my mentor provides Occupational Health and Safety Occupation (OSHA) compliance to all JDD, Inc. employees and handles all other issues (Environmental Protection Agency issues, workers compensation, safety and health training) involving to job safety. My summer assignment was not as considered "groundbreaking research" like many other summer interns have done in the past, but it is just as important and beneficial to JDD, Inc. I initially created a database using a Microsoft Excel program to classify and categorize data pertaining to numerous safety training certification courses instructed by our safety manager during the course of the fiscal year. This early portion of the database consisted of only data (training field index, employees who were present at these training courses and who was absent) from the training certification courses. Once I completed this phase of the database, I decided to expand the database and add as many dimensions to it as possible. Throughout the last seven weeks, I have been compiling more data from day to day operations and been adding the

  17. Compressing DNA sequence databases with coil

    Directory of Open Access Journals (Sweden)

    Hendy Michael D

    2008-05-01

    Full Text Available Abstract Background Publicly available DNA sequence databases such as GenBank are large, and are growing at an exponential rate. The sheer volume of data being dealt with presents serious storage and data communications problems. Currently, sequence data is usually kept in large "flat files," which are then compressed using standard Lempel-Ziv (gzip compression – an approach which rarely achieves good compression ratios. While much research has been done on compressing individual DNA sequences, surprisingly little has focused on the compression of entire databases of such sequences. In this study we introduce the sequence database compression software coil. Results We have designed and implemented a portable software package, coil, for compressing and decompressing DNA sequence databases based on the idea of edit-tree coding. coil is geared towards achieving high compression ratios at the expense of execution time and memory usage during compression – the compression time represents a "one-off investment" whose cost is quickly amortised if the resulting compressed file is transmitted many times. Decompression requires little memory and is extremely fast. We demonstrate a 5% improvement in compression ratio over state-of-the-art general-purpose compression tools for a large GenBank database file containing Expressed Sequence Tag (EST data. Finally, coil can efficiently encode incremental additions to a sequence database. Conclusion coil presents a compelling alternative to conventional compression of flat files for the storage and distribution of DNA sequence databases having a narrow distribution of sequence lengths, such as EST data. Increasing compression levels for databases having a wide distribution of sequence lengths is a direction for future work.

  18. Sequence History Update Tool

    Science.gov (United States)

    Khanampompan, Teerapat; Gladden, Roy; Fisher, Forest; DelGuercio, Chris

    2008-01-01

    The Sequence History Update Tool performs Web-based sequence statistics archiving for Mars Reconnaissance Orbiter (MRO). Using a single UNIX command, the software takes advantage of sequencing conventions to automatically extract the needed statistics from multiple files. This information is then used to populate a PHP database, which is then seamlessly formatted into a dynamic Web page. This tool replaces a previous tedious and error-prone process of manually editing HTML code to construct a Web-based table. Because the tool manages all of the statistics gathering and file delivery to and from multiple data sources spread across multiple servers, there is also a considerable time and effort savings. With the use of The Sequence History Update Tool what previously took minutes is now done in less than 30 seconds, and now provides a more accurate archival record of the sequence commanding for MRO.

  19. Database Description - Open TG-GATEs Pathological Image Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available List Contact us Open TG-GATEs Pathological Image Database Database Description General information of database Database... name Open TG-GATEs Pathological Image Database Alternative name - DOI 10.18908/lsdba.nbdc00954-0...iomedical Innovation 7-6-8, Saito-asagi, Ibaraki-city, Osaka 567-0085, Japan TEL:81-72-641-9826 Email: Database... classification Toxicogenomics Database Organism Taxonomy Name: Rattus norvegi... Article title: Author name(s): Journal: External Links: Original website information Database

  20. 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

  1. Database management systems understanding and applying database technology

    CERN Document Server

    Gorman, Michael M

    1991-01-01

    Database Management Systems: Understanding and Applying Database Technology focuses on the processes, methodologies, techniques, and approaches involved in database management systems (DBMSs).The book first takes a look at ANSI database standards and DBMS applications and components. Discussion focus on application components and DBMS components, implementing the dynamic relationship application, problems and benefits of dynamic relationship DBMSs, nature of a dynamic relationship application, ANSI/NDL, and DBMS standards. The manuscript then ponders on logical database, interrogation, and phy

  2. Managing the BaBar object oriented database

    International Nuclear Information System (INIS)

    Hasan, A.; Trunov, A.

    2001-01-01

    The BaBar experiment stores its data in an Object Oriented federated database supplied by Objectivity/DB(tm). This database is currently 350TB in size and is expected to increase considerably as the experiment matures. Management of this database requires careful planning and specialized tools in order to make the data available to physicists in an efficient and timely manner. The authors discuss the operational issues and management tools that were developed during the previous run to deal with this vast quantity of data at SLAC

  3. LHCb Conditions Database Operation Assistance Systems

    CERN Multimedia

    Shapoval, Illya

    2012-01-01

    The Conditions Database of the LHCb experiment (CondDB) provides versioned, time dependent geometry and conditions data for all LHCb data processing applications (simulation, high level trigger, reconstruction, analysis) in a heterogeneous computing environment ranging from user laptops to the HLT farm and the Grid. These different use cases impose front-end support for multiple database technologies (Oracle and SQLite are used). Sophisticated distribution tools are required to ensure timely and robust delivery of updates to all environments. The content of the database has to be managed to ensure that updates are internally consistent and externally compatible with multiple versions of the physics application software. In this paper we describe three systems that we have developed to address these issues: - an extension to the automatic content validation done by the “Oracle Streams” replication technology, to trap cases when the replication was unsuccessful; - an automated distribution process for the S...

  4. KVANE - a Kvanefjeld drill core database

    International Nuclear Information System (INIS)

    Lund Clausen, F.

    1980-01-01

    A database KVANE containing all drill core information from the drilling programme carried out in 1958, 1962, 1969 and 1977 at the uranium deposit in Kvanefjeld, Southwest Greenland has been made. The applicaTion software ''Statistical Analysis System (SAS)'' was used as the programming tool. It is shown how this software, usually used for other purposes, satisfy a demand of easy storing of larger data amounts. The paper describes how KVANE was made and organized and how data can be picked out of the database. A short introduction to the SAS system is also given. The database has been implemented at the Northern European University Computing Center (NEUCC) at the Technical University of Denmark. (author)

  5. 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....

  6. Lectindb: a plant lectin database.

    Science.gov (United States)

    Chandra, Nagasuma R; Kumar, Nirmal; Jeyakani, Justin; Singh, Desh Deepak; Gowda, Sharan B; Prathima, M N

    2006-10-01

    Lectins, a class of carbohydrate-binding proteins, are now widely recognized to play a range of crucial roles in many cell-cell recognition events triggering several important cellular processes. They encompass different members that are diverse in their sequences, structures, binding site architectures, quaternary structures, carbohydrate affinities, and specificities as well as their larger biological roles and potential applications. It is not surprising, therefore, that the vast amount of experimental data on lectins available in the literature is so diverse, that it becomes difficult and time consuming, if not impossible to comprehend the advances in various areas and obtain the maximum benefit. To achieve an effective use of all the data toward understanding the function and their possible applications, an organization of these seemingly independent data into a common framework is essential. An integrated knowledge base ( Lectindb, http://nscdb.bic.physics.iisc.ernet.in ) together with appropriate analytical tools has therefore been developed initially for plant lectins by collating and integrating diverse data. The database has been implemented using MySQL on a Linux platform and web-enabled using PERL-CGI and Java tools. Data for each lectin pertain to taxonomic, biochemical, domain architecture, molecular sequence, and structural details as well as carbohydrate and hence blood group specificities. Extensive links have also been provided for relevant bioinformatics resources and analytical tools. Availability of diverse data integrated into a common framework is expected to be of high value not only for basic studies in lectin biology but also for basic studies in pursuing several applications in biotechnology, immunology, and clinical practice, using these molecules.

  7. DataBase on Demand

    International Nuclear Information System (INIS)

    Aparicio, R Gaspar; Gomez, D; Wojcik, D; Coz, I Coterillo

    2012-01-01

    At CERN a number of key database applications are running on user-managed MySQL database services. The database on demand project was born out of an idea to provide the CERN user community with an environment to develop and run database services outside of the actual centralised Oracle based database services. The Database on Demand (DBoD) empowers the user to perform certain actions that had been traditionally done by database administrators, DBA's, providing an enterprise platform for database applications. It also allows the CERN user community to run different database engines, e.g. presently open community version of MySQL and single instance Oracle database server. This article describes a technology approach to face this challenge, a service level agreement, the SLA that the project provides, and an evolution of possible scenarios.

  8. DATABASES DEVELOPED IN INDIA FOR BIOLOGICAL SCIENCES

    Directory of Open Access Journals (Sweden)

    Gitanjali Yadav

    2017-09-01

    Full Text Available The complexity of biological systems requires use of a variety of experimental methods with ever increasing sophistication to probe various cellular processes at molecular and atomic resolution. The availability of technologies for determining nucleic acid sequences of genes and atomic resolution structures of biomolecules prompted development of major biological databases like GenBank and PDB almost four decades ago. India was one of the few countries to realize early, the utility of such databases for progress in modern biology/biotechnology. Department of Biotechnology (DBT, India established Biotechnology Information System (BTIS network in late eighties. Starting with the genome sequencing revolution at the turn of the century, application of high-throughput sequencing technologies in biology and medicine for analysis of genomes, transcriptomes, epigenomes and microbiomes have generated massive volumes of sequence data. BTIS network has not only provided state of the art computational infrastructure to research institutes and universities for utilizing various biological databases developed abroad in their research, it has also actively promoted research and development (R&D projects in Bioinformatics to develop a variety of biological databases in diverse areas. It is encouraging to note that, a large number of biological databases or data driven software tools developed in India, have been published in leading peer reviewed international journals like Nucleic Acids Research, Bioinformatics, Database, BMC, PLoS and NPG series publication. Some of these databases are not only unique, they are also highly accessed as reflected in number of citations. Apart from databases developed by individual research groups, BTIS has initiated consortium projects to develop major India centric databases on Mycobacterium tuberculosis, Rice and Mango, which can potentially have practical applications in health and agriculture. Many of these biological

  9. A web-based database for EPR centers in semiconductors

    International Nuclear Information System (INIS)

    Umeda, T.; Hagiwara, S.; Katagiri, M.; Mizuochi, N.; Isoya, J.

    2006-01-01

    We develop a web-based database system for electron paramagnetic resonance (EPR) centers in semiconductors. This database is available to anyone at http://www.kc.tsukuba.ac.jp/div-media/epr/. It currently has more than 300 records of the spin-Hamiltonian parameters for major known EPR centers. One can upload own new records to the database or can use simulation tools powered by EPR-NMR(C). Here, we describe the features and objectives of this database, and mention some future plans

  10. Solid Waste Projection Model: Database (Version 1.3)

    International Nuclear Information System (INIS)

    Blackburn, C.L.

    1991-11-01

    The Solid Waste Projection Model (SWPM) system is an analytical tool developed by Pacific Northwest Laboratory (PNL) for Westinghouse Hanford Company (WHC). The SWPM system provides a modeling and analysis environment that supports decisions in the process of evaluating various solid waste management alternatives. This document, one of a series describing the SWPM system, contains detailed information regarding the software and data structures utilized in developing the SWPM Version 1.3 Database. This document is intended for use by experienced database specialists and supports database maintenance, utility development, and database enhancement

  11. A user's manual for managing database system of tensile property

    International Nuclear Information System (INIS)

    Ryu, Woo Seok; Park, S. J.; Kim, D. H.; Jun, I.

    2003-06-01

    This manual is written for the management and maintenance of the tensile database system for managing the tensile property test data. The data base constructed the data produced from tensile property test can increase the application of test results. Also, we can get easily the basic data from database when we prepare the new experiment and can produce better result by compare the previous data. To develop the database we must analyze and design carefully application and after that, we can offer the best quality to customers various requirements. The tensile database system was developed by internet method using Java, PL/SQL, JSP(Java Server Pages) tool

  12. Wilmar Planning Tool, user guide

    Energy Technology Data Exchange (ETDEWEB)

    Larsen, Helge V.

    2006-01-15

    This is a short user guide to the Wilmar Planning Tool developed in the project Wind Power Integration in Liberalised Electricity Markets (WILMAR) supported by EU (Contract No. ENK5-CT-2002-00663). A User Shell implemented in an Excel workbook controls the Wilmar Planning Tool. All data are contained in Access databases that communicate with various sub-models through text files that are exported from or imported to the databases. In the User Shell various scenario variables and control parameters are set, and export of model data from the input database, activation of the models, as well as import of model results to the output database are triggered from the shell. (au)

  13. Wilmar Planning Tool, user guide

    International Nuclear Information System (INIS)

    Larsen, Helge V.

    2006-01-01

    This is a short user guide to the Wilmar Planning Tool developed in the project Wind Power Integration in Liberalised Electricity Markets (WILMAR) supported by EU (Contract No. ENK5-CT-2002-00663). A User Shell implemented in an Excel workbook controls the Wilmar Planning Tool. All data are contained in Access databases that communicate with various sub-models through text files that are exported from or imported to the databases. In the User Shell various scenario variables and control parameters are set, and export of model data from the input database, activation of the models, as well as import of model results to the output database are triggered from the shell. (au)

  14. Meta-learning from an experiment database

    OpenAIRE

    Driessens, Kurt; Vanwinckelen, Gitte; Blockeel, Hendrik

    2012-01-01

    In this short paper, we present a student project run as part of the Machine Learning and Inductive Inference course at KU Leuven during the 2010-2011 academic year. The goal of the project was to analyze a Machine Learning Experiment database, using standard SQL queries and data mining tools with the goals of (1) giving the students some practice with applying the machine learning techniques on a real problem, (2) teaching them something about the properties of machine learning algorithms...

  15. The PEP-II project-wide database

    International Nuclear Information System (INIS)

    Chan, A.; Calish, S.; Crane, G.; MacGregor, I.; Meyer, S.; Wong, J.

    1995-05-01

    The PEP-II Project Database is a tool for monitoring the technical and documentation aspects of this accelerator construction. It holds the PEP-II design specifications, fabrication and installation data in one integrated system. Key pieces of the database include the machine parameter list, magnet and vacuum fabrication data. CAD drawings, publications and documentation, survey and alignment data and property control. The database can be extended to contain information required for the operations phase of the accelerator and detector. Features such as viewing CAD drawing graphics from the database will be implemented in the future. This central Oracle database on a UNIX server is built using ORACLE Case tools. Users at the three collaborating laboratories (SLAC, LBL, LLNL) can access the data remotely, using various desktop computer platforms and graphical interfaces

  16. REPLIKASI UNIDIRECTIONAL PADA HETEROGEN DATABASE

    OpenAIRE

    Hendro Nindito; Evaristus Didik Madyatmadja; Albert Verasius Dian Sano

    2013-01-01

    The use of diverse database technology in enterprise today can not be avoided. Thus, technology is needed to generate information in real time. The purpose of this research is to discuss a database replication technology that can be applied in heterogeneous database environments. In this study we use Windows-based MS SQL Server database to Linux-based Oracle database as the goal. The research method used is prototyping where development can be done quickly and testing of working models of the...

  17. KALIMER database development (database configuration and design methodology)

    International Nuclear Information System (INIS)

    Jeong, Kwan Seong; Kwon, Young Min; Lee, Young Bum; Chang, Won Pyo; Hahn, Do Hee

    2001-10-01

    KALIMER Database is an advanced database to utilize the integration management for Liquid Metal Reactor Design Technology Development using Web Applicatins. KALIMER Design database consists of Results Database, Inter-Office Communication (IOC), and 3D CAD database, Team Cooperation system, and Reserved Documents, Results Database is a research results database during phase II for Liquid Metal Reactor Design Technology Develpment of mid-term and long-term nuclear R and D. IOC is a linkage control system inter sub project to share and integrate the research results for KALIMER. 3D CAD Database is s schematic design overview for KALIMER. Team Cooperation System is to inform team member of research cooperation and meetings. Finally, KALIMER Reserved Documents is developed to manage collected data and several documents since project accomplishment. This report describes the features of Hardware and Software and the Database Design Methodology for KALIMER

  18. BDVC (Bimodal Database of Violent Content): A database of violent audio and video

    Science.gov (United States)

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

    2017-09-01

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

  19. 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

  20. The magnet database system

    International Nuclear Information System (INIS)

    Ball, M.J.; Delagi, N.; Horton, B.; Ivey, J.C.; Leedy, R.; Li, X.; Marshall, B.; Robinson, S.L.; Tompkins, J.C.

    1992-01-01

    The Test Department of the Magnet Systems Division of the Superconducting Super Collider Laboratory (SSCL) is developing a central database of SSC magnet information that will be available to all magnet scientists at the SSCL or elsewhere, via network connections. The database contains information on the magnets' major components, configuration information (specifying which individual items were used in each cable, coil, and magnet), measurements made at major fabrication stages, and the test results on completed magnets. These data will facilitate the correlation of magnet performance with the properties of its constituents. Recent efforts have focused on the development of procedures for user-friendly access to the data, including displays in the format of the production open-quotes travelerclose quotes data sheets, standard summary reports, and a graphical interface for ad hoc queues and plots