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Sample records for qtl database development

  1. Design database for quantitative trait loci (QTL) data warehouse, data mining, and meta-analysis.

    Science.gov (United States)

    Hu, Zhi-Liang; Reecy, James M; Wu, Xiao-Lin

    2012-01-01

    A database can be used to warehouse quantitative trait loci (QTL) data from multiple sources for comparison, genomic data mining, and meta-analysis. A robust database design involves sound data structure logistics, meaningful data transformations, normalization, and proper user interface designs. This chapter starts with a brief review of relational database basics and concentrates on issues associated with curation of QTL data into a relational database, with emphasis on the principles of data normalization and structure optimization. In addition, some simple examples of QTL data mining and meta-analysis are included. These examples are provided to help readers better understand the potential and importance of sound database design.

  2. QTL Information Table - Q-TARO | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ct character Category of object character Character Character Marker Type of marker...ta item Description id ID number of QTL QTL/Gene Name of QTL Major category Major category of quantitative character Category of obje

  3. 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

  4. Update History of This Database - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us PGDBj Registered...f This Database Date Update contents 2014/10/10 PGDBj Registered plant list, Marker list, QTL list, Plant DB... link & Genome analysis methods English archive site is opened. 2012/08/08 PGDBj Registered... Policy | Contact Us Update History of This Database - PGDBj Registered plant lis

  5. QTL list - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us PGDBj Registered...Policy | Contact Us QTL list - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive ...

  6. License - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available f you use data from this database, please be sure attribute this database as follows: ... PGDBj Registered plan... Policy | Contact Us License - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive ... ...switchLanguage; BLAST Search Image Search Home About Archive Update History Data ...List Contact us PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods

  7. MetaQTL: a package of new computational methods for the meta-analysis of QTL mapping experiments

    Directory of Open Access Journals (Sweden)

    Charcosset Alain

    2007-02-01

    Full Text Available Abstract Background Integration of multiple results from Quantitative Trait Loci (QTL studies is a key point to understand the genetic determinism of complex traits. Up to now many efforts have been made by public database developers to facilitate the storage, compilation and visualization of multiple QTL mapping experiment results. However, studying the congruency between these results still remains a complex task. Presently, the few computational and statistical frameworks to do so are mainly based on empirical methods (e.g. consensus genetic maps are generally built by iterative projection. Results In this article, we present a new computational and statistical package, called MetaQTL, for carrying out whole-genome meta-analysis of QTL mapping experiments. Contrary to existing methods, MetaQTL offers a complete statistical process to establish a consensus model for both the marker and the QTL positions on the whole genome. First, MetaQTL implements a new statistical approach to merge multiple distinct genetic maps into a single consensus map which is optimal in terms of weighted least squares and can be used to investigate recombination rate heterogeneity between studies. Secondly, assuming that QTL can be projected on the consensus map, MetaQTL offers a new clustering approach based on a Gaussian mixture model to decide how many QTL underly the distribution of the observed QTL. Conclusion We demonstrate using simulations that the usual model choice criteria from mixture model literature perform relatively well in this context. As expected, simulations also show that this new clustering algorithm leads to a reduction in the length of the confidence interval of QTL location provided that across studies there are enough observed QTL for each underlying true QTL location. The usefulness of our approach is illustrated on published QTL detection results of flowering time in maize. Finally, MetaQTL is freely available at http://bioinformatics.org/mqtl.

  8. Genome analysis methods - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us PGDBj Registered...ear Year of genome analysis Sequencing method Sequencing method Read counts Read counts Covered genome region Covered...otation method Number of predicted genes Number of predicted genes Genome database Genome database informati... License Update History of This Database Site Policy | Contact Us Genome analysis... methods - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive ...

  9. Cloud database development and management

    CERN Document Server

    Chao, Lee

    2013-01-01

    Nowadays, cloud computing is almost everywhere. However, one can hardly find a textbook that utilizes cloud computing for teaching database and application development. This cloud-based database development book teaches both the theory and practice with step-by-step instructions and examples. This book helps readers to set up a cloud computing environment for teaching and learning database systems. The book will cover adequate conceptual content for students and IT professionals to gain necessary knowledge and hands-on skills to set up cloud based database systems.

  10. Data-Based Teacher Development.

    Science.gov (United States)

    Borg, Simon

    1998-01-01

    Describes how data from English language teaching (ELT) classroom research can be exploited in teacher development activities. The contribution data-based activities can make to teacher development is outlined, and examples that illustrate the principles underlying their design are presented. A case is made for using such activities to facilitate…

  11. In-silico QTL mapping of postpubertal mammary ductal development in the mouse uncovers potential human breast cancer risk loci

    Science.gov (United States)

    Genetic background plays a dominant role in mammary gland development and breast cancer (BrCa). Despite this, the role of genetics is only partially understood. This study used strain-dependent variation in an inbred mouse mapping panel, to identify quantitative trait loci (QTL) underlying structura...

  12. QTL mapping in multiple populations and development stages reveals dynamic quantitative trait loci for fruit size in cucumbers of different market classes.

    Science.gov (United States)

    Weng, Yiqun; Colle, Marivi; Wang, Yuhui; Yang, Luming; Rubinstein, Mor; Sherman, Amir; Ophir, Ron; Grumet, Rebecca

    2015-09-01

    QTL analysis in multi-development stages with different QTL models identified 12 consensus QTLs underlying fruit elongation and radial growth presenting a dynamic view of genetic control of cucumber fruit development. Fruit size is an important quality trait in cucumber (Cucumis sativus L.) of different market classes. However, the genetic and molecular basis of fruit size variations in cucumber is not well understood. In this study, we conducted QTL mapping of fruit size in cucumber using F2, F2-derived F3 families and recombinant inbred lines (RILs) from a cross between two inbred lines Gy14 (North American picking cucumber) and 9930 (North China fresh market cucumber). Phenotypic data of fruit length and diameter were collected at three development stages (anthesis, immature and mature fruits) in six environments over 4 years. QTL analysis was performed with three QTL models including composite interval mapping (CIM), Bayesian interval mapping (BIM), and multiple QTL mapping (MQM). Twenty-nine consistent and distinct QTLs were detected for nine traits from multiple mapping populations and QTL models. Synthesis of information from available fruit size QTLs allowed establishment of 12 consensus QTLs underlying fruit elongation and radial growth, which presented a dynamic view of genetic control of cucumber fruit development. Results from this study highlighted the benefits of QTL analysis with multiple QTL models and different mapping populations in improving the power of QTL detection. Discussion was presented in the context of domestication and diversifying selection of fruit length and diameter, marker-assisted selection of fruit size, as well as identification of candidate genes for fruit size QTLs in cucumber.

  13. Ancestral QTL Alleles from Wild Emmer Wheat Enhance Root Development under Drought in Modern Wheat.

    Science.gov (United States)

    Merchuk-Ovnat, Lianne; Fahima, Tzion; Ephrath, Jhonathan E; Krugman, Tamar; Saranga, Yehoshua

    2017-01-01

    A near-isogenic line (NIL-7A-B-2), introgressed with a quantitative trait locus (QTL) on chromosome 7AS from wild emmer wheat (Triticum turgidum ssp. dicoccoides) into the background of bread wheat (T. aestivum L.) cv. BarNir, was recently developed and studied in our lab. NIL-7A-B-2 exhibited better productivity and photosynthetic capacity than its recurrent parent across a range of environments. Here we tested the hypothesis that root-system modifications play a major role in NIL-7A-B-2's agronomical superiority. Root-system architecture (dry matter and projected surface area) and shoot parameters of NIL-7A-B-2 and 'BarNir' were evaluated at 40, 62, and 82 days after planting (DAP) in a sand-tube experiment, and root tip number was assessed in a 'cigar-roll' seedling experiment, both under well-watered and water-limited (WL) treatments. At 82 DAP, under WL treatment, NIL-7A-B-2 presented greater investment in deep roots (depth 40-100 cm) than 'BarNir,' with the most pronounced effect recorded in the 60-80 cm soil depth (60 and 40% increase for root dry matter and surface area, respectively). NIL-7A-B-2 had significantly higher root-tip numbers (∼48%) per plant than 'BarNir' under both treatments. These results suggest that the introgression of 7AS QTL from wild emmer wheat induced a deeper root system under progressive water stress, which may enhance abiotic stress resistance and productivity of domesticated wheat.

  14. QTL mapping designs for aquaculture.

    NARCIS (Netherlands)

    Massault, C.; Bovenhuis, H.; Haley, C.S.; Koning, de D.J.

    2008-01-01

    Rapid development of genomics technology is providing new opportunities for genetic studies, including QTL mapping, in many aquaculture species. This paper investigates the strengths and limitations of QTL mapping designs for fish and shellfish under three different controlled breeding schemes. For

  15. Database Description - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available d and funding Name: Database Integration Coordination Program (FY2011-FY2013) Integration of plant databases...ency (JST) Reference(s) Article title: Plant Genome DataBase Japan (PGDBj): A Portal Website for the Integ...ration of Plant Genome-Related Databases Author name(s): Erika Asamizu, Hisako Ichi

  16. Development of molecular markers linked to the 'Fiesta' linkage group 7 major QTL for fire blight resistance and their application for marker-assisted selection.

    Science.gov (United States)

    Khan, Muhammad A; Durel, Charles-Eric; Duffy, Brion; Drouet, Damien; Kellerhals, Markus; Gessler, Cesare; Patocchi, Andrea

    2007-06-01

    A fire blight resistance QTL explaining 34.3%-46.6% of the phenotypic variation was recently identified on linkage group 7 of apple cultivar 'Fiesta' (F7). However, markers flanking this QTL were AFLP and RAPD markers unsuitable for marker-assisted selection (MAS). Two RAPD markers bracketing the QTL have been transformed into SCAR (sequence-characterized amplified region) markers, and an SSR marker specific for the region was developed. Pedigree analysis of 'Fiesta' with these markers enabled tracking of the F7 QTL allele back to 'Cox's Orange Pippin'. Stability of the effect of this QTL allele in different backgrounds was analyzed by inoculating progeny plants of a cross between 'Milwa', a susceptible cultivar, and '1217', a moderately resistant cultivar, and a set of cultivars that carry or lack the allele conferring increased fire blight resistance. Progenies and cultivars that carried both markers were significantly more resistant than those that did not carry both markers, indicating high stability of the F7 QTL allele in different backgrounds. This stability and the availability of reproducible markers bracketing the QTL make this locus promising for use in MAS.

  17. Nuclear Concrete Materials Database Phase I Development

    Energy Technology Data Exchange (ETDEWEB)

    Ren, Weiju [ORNL; Naus, Dan J [ORNL

    2012-05-01

    The FY 2011 accomplishments in Phase I development of the Nuclear Concrete Materials Database to support the Light Water Reactor Sustainability Program are summarized. The database has been developed using the ORNL materials database infrastructure established for the Gen IV Materials Handbook to achieve cost reduction and development efficiency. In this Phase I development, the database has been successfully designed and constructed to manage documents in the Portable Document Format generated from the Structural Materials Handbook that contains nuclear concrete materials data and related information. The completion of the Phase I database has established a solid foundation for Phase II development, in which a digital database will be designed and constructed to manage nuclear concrete materials data in various digitized formats to facilitate electronic and mathematical processing for analysis, modeling, and design applications.

  18. Database thinking development in Context of School Education

    OpenAIRE

    Panský, Mikoláš

    2011-01-01

    The term database thinking is understood as group of Competencies that enables working with Database System. Database thinking development is targeted educational incidence to student with the expected outcome ability working with Database system. Thesis is focused on problematic of purposes, content and methods of database thinking development. Experimental part proposes quantitative metrics for database thinking development. KEYWORDS: Education, Database, Database thinking, Structured Query...

  19. Advances in QTL Mapping in Pigs

    Directory of Open Access Journals (Sweden)

    Max F. Rothschild, Zhi-liang Hu, Zhihua Jiang

    2007-01-01

    Full Text Available Over the past 15 years advances in the porcine genetic linkage map and discovery of useful candidate genes have led to valuable gene and trait information being discovered. Early use of exotic breed crosses and now commercial breed crosses for quantitative trait loci (QTL scans and candidate gene analyses have led to 110 publications which have identified 1,675 QTL. Additionally, these studies continue to identify genes associated with economically important traits such as growth rate, leanness, feed intake, meat quality, litter size, and disease resistance. A well developed QTL database called PigQTLdb is now as a valuable tool for summarizing and pinpointing in silico regions of interest to researchers. The commercial pig industry is actively incorporating these markers in marker-assisted selection along with traditional performance information to improve traits of economic performance. The long awaited sequencing efforts are also now beginning to provide sequence available for both comparative genomics and large scale single nucleotide polymorphism (SNP association studies. While these advances are all positive, development of useful new trait families and measurement of new or underlying traits still limits future discoveries. A review of these developments is presented.

  20. Development of a QTL-environment-based predictive model for node addition rate in common bean.

    Science.gov (United States)

    Zhang, Li; Gezan, Salvador A; Eduardo Vallejos, C; Jones, James W; Boote, Kenneth J; Clavijo-Michelangeli, Jose A; Bhakta, Mehul; Osorno, Juan M; Rao, Idupulapati; Beebe, Stephen; Roman-Paoli, Elvin; Gonzalez, Abiezer; Beaver, James; Ricaurte, Jaumer; Colbert, Raphael; Correll, Melanie J

    2017-05-01

    This work reports the effects of the genetic makeup, the environment and the genotype by environment interactions for node addition rate in an RIL population of common bean. This information was used to build a predictive model for node addition rate. To select a plant genotype that will thrive in targeted environments it is critical to understand the genotype by environment interaction (GEI). In this study, multi-environment QTL analysis was used to characterize node addition rate (NAR, node day(- 1)) on the main stem of the common bean (Phaseolus vulgaris L). This analysis was carried out with field data of 171 recombinant inbred lines that were grown at five sites (Florida, Puerto Rico, 2 sites in Colombia, and North Dakota). Four QTLs (Nar1, Nar2, Nar3 and Nar4) were identified, one of which had significant QTL by environment interactions (QEI), that is, Nar2 with temperature. Temperature was identified as the main environmental factor affecting NAR while day length and solar radiation played a minor role. Integration of sites as covariates into a QTL mixed site-effect model, and further replacing the site component with explanatory environmental covariates (i.e., temperature, day length and solar radiation) yielded a model that explained 73% of the phenotypic variation for NAR with root mean square error of 16.25% of the mean. The QTL consistency and stability was examined through a tenfold cross validation with different sets of genotypes and these four QTLs were always detected with 50-90% probability. The final model was evaluated using leave-one-site-out method to assess the influence of site on node addition rate. These analyses provided a quantitative measure of the effects on NAR of common beans exerted by the genetic makeup, the environment and their interactions.

  1. The Developement of A Lattice Structured Database

    DEFF Research Database (Denmark)

    Bruun, Hans

    to a given set of inserted terms, that is the smallest lattice where the inserted terms preserve their value compared to the value in the initial algebra/lattice. The database is the dual representation of this most disjoint lattice. We develop algorithms to construct and make queries to the database....

  2. Development of a Water Infrastructure Knowledge Database

    Science.gov (United States)

    This paper presents a methodology for developing a national database, as applied to water infrastructure systems, which includes both drinking water and wastewater. The database is branded as "WATERiD" and can be accessed at www.waterid.org. Water infrastructure in the U.S. is ag...

  3. 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

  4. Download - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us PGDBj Registered...d 1 README README_e.html - 2 Registered plant list pgdbj_dna_marker_linkage_map_plant_species_list_en.zip (2...Policy | Contact Us Download - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive ...

  5. Genetic dissection of the maize kernel development process via conditional QTL mapping for three developing kernel-related traits in an immortalized F2 population.

    Science.gov (United States)

    Zhang, Zhanhui; Wu, Xiangyuan; Shi, Chaonan; Wang, Rongna; Li, Shengfei; Wang, Zhaohui; Liu, Zonghua; Xue, Yadong; Tang, Guiliang; Tang, Jihua

    2016-02-01

    Kernel development is an important dynamic trait that determines the final grain yield in maize. To dissect the genetic basis of maize kernel development process, a conditional quantitative trait locus (QTL) analysis was conducted using an immortalized F2 (IF2) population comprising 243 single crosses at two locations over 2 years. Volume (KV) and density (KD) of dried developing kernels, together with kernel weight (KW) at different developmental stages, were used to describe dynamic changes during kernel development. Phenotypic analysis revealed that final KW and KD were determined at DAP22 and KV at DAP29. Unconditional QTL mapping for KW, KV and KD uncovered 97 QTLs at different kernel development stages, of which qKW6b, qKW7a, qKW7b, qKW10b, qKW10c, qKV10a, qKV10b and qKV7 were identified under multiple kernel developmental stages and environments. Among the 26 QTLs detected by conditional QTL mapping, conqKW7a, conqKV7a, conqKV10a, conqKD2, conqKD7 and conqKD8a were conserved between the two mapping methodologies. Furthermore, most of these QTLs were consistent with QTLs and genes for kernel development/grain filling reported in previous studies. These QTLs probably contain major genes associated with the kernel development process, and can be used to improve grain yield and quality through marker-assisted selection.

  6. 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.

  7. Database Description - Q-TARO | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available tiva Taxonomy ID: 4530 Database description This is a database of Rice QTL information extracted from published research...pare their positions. To facilitate reliable comparisons of rice QTLs, we extracted QTL information from published research

  8. Design and development a children's speech database

    OpenAIRE

    Kraleva, Radoslava

    2016-01-01

    The report presents the process of planning, designing and the development of a database of spoken children's speech whose native language is Bulgarian. The proposed model is designed for children between the age of 4 and 6 without speech disorders, and reflects their specific capabilities. At this age most children cannot read, there is no sustained concentration, they are emotional, etc. The aim is to unite all the media information accompanying the recording and processing of spoken speech...

  9. Impact: development of a radiological mummy database.

    Science.gov (United States)

    Nelson, Andrew John; Wade, Andrew David

    2015-06-01

    The Internet Mummy Picture Archiving and Communication Technology (IMPACT) radiological and context database, is a large-scale, multi-institutional, collaborative research project devoted to the digital preservation and scientific study of mummified remains, and the mummification traditions that produced them, using non-destructive medical imaging technologies. Owing to the importance of non-destructive analyses to the study of mummified human remains, the IMPACT database, website, and wiki provide a basis for anthropological and palaeopathological investigations, grounded in the most current technological imaging and communication standards, accessible through any internet connection, and protected against rapidly changing media standards. Composed of paired online radiographic and contextual databases, the IMPACT project is intended to provide researchers with large-scale primary data samples for anthropological and palaeopathological investigations. IMPACT addresses the limitations of the case-study approach to mummified human remains and contributes to the development of standards of practice in imaging of mummified remains. Furthermore, IMPACT allows researchers a greater appreciation of, and engagement with, patterns of health and disease in ancient times as well as the variability present in the mummification traditions of ancient Egypt and other cultures that sought to preserve their dead for eternity.

  10. Statistical properties of interval mapping methods on quantitative trait loci location: impact on QTL/eQTL analyses

    Directory of Open Access Journals (Sweden)

    Wang Xiaoqiang

    2012-04-01

    Full Text Available Abstract Background Quantitative trait loci (QTL detection on a huge amount of phenotypes, like eQTL detection on transcriptomic data, can be dramatically impaired by the statistical properties of interval mapping methods. One of these major outcomes is the high number of QTL detected at marker locations. The present study aims at identifying and specifying the sources of this bias, in particular in the case of analysis of data issued from outbred populations. Analytical developments were carried out in a backcross situation in order to specify the bias and to propose an algorithm to control it. The outbred population context was studied through simulated data sets in a wide range of situations. The likelihood ratio test was firstly analyzed under the "one QTL" hypothesis in a backcross population. Designs of sib families were then simulated and analyzed using the QTL Map software. On the basis of the theoretical results in backcross, parameters such as the population size, the density of the genetic map, the QTL effect and the true location of the QTL, were taken into account under the "no QTL" and the "one QTL" hypotheses. A combination of two non parametric tests - the Kolmogorov-Smirnov test and the Mann-Whitney-Wilcoxon test - was used in order to identify the parameters that affected the bias and to specify how much they influenced the estimation of QTL location. Results A theoretical expression of the bias of the estimated QTL location was obtained for a backcross type population. We demonstrated a common source of bias under the "no QTL" and the "one QTL" hypotheses and qualified the possible influence of several parameters. Simulation studies confirmed that the bias exists in outbred populations under both the hypotheses of "no QTL" and "one QTL" on a linkage group. The QTL location was systematically closer to marker locations than expected, particularly in the case of low QTL effect, small population size or low density of markers, i

  11. Development of thermodynamic databases for geochemical calculations

    Energy Technology Data Exchange (ETDEWEB)

    Arthur, R.C. [Monitor Scientific, L.L.C., Denver, Colorado (United States); Sasamoto, Hiroshi; Shibata, Masahiro; Yui, Mikazu [Japan Nuclear Cycle Development Inst., Tokai, Ibaraki (Japan); Neyama, Atsushi [Computer Software Development Corp., Tokyo (Japan)

    1999-09-01

    Two thermodynamic databases for geochemical calculations supporting research and development on geological disposal concepts for high level radioactive waste are described in this report. One, SPRONS.JNC, is compatible with thermodynamic relations comprising the SUPCRT model and software, which permits calculation of the standard molal and partial molal thermodynamic properties of minerals, gases, aqueous species and reactions from 1 to 5000 bars and 0 to 1000degC. This database includes standard molal Gibbs free energies and enthalpies of formation, standard molal entropies and volumes, and Maier-Kelly heat capacity coefficients at the reference pressure (1 bar) and temperature (25degC) for 195 minerals and 16 gases. It also includes standard partial molal Gibbs free energies and enthalpies of formation, standard partial molal entropies, and Helgeson, Kirkham and Flowers (HKF) equation-of-state coefficients at the reference pressure and temperature for 1147 inorganic and organic aqueous ions and complexes. SPRONS.JNC extends similar databases described elsewhere by incorporating new and revised data published in the peer-reviewed literature since 1991. The other database, PHREEQE.JNC, is compatible with the PHREEQE series of geochemical modeling codes. It includes equilibrium constants at 25degC and l bar for mineral-dissolution, gas-solubility, aqueous-association and oxidation-reduction reactions. Reaction enthalpies, or coefficients in an empirical log K(T) function, are also included in this database, which permits calculation of equilibrium constants between 0 and 100degC at 1 bar. All equilibrium constants, reaction enthalpies, and log K(T) coefficients in PHREEQE.JNC are calculated using SUPCRT and SPRONS.JNC, which ensures that these two databases are mutually consistent. They are also internally consistent insofar as all the data are compatible with basic thermodynamic definitions and functional relations in the SUPCRT model, and because primary

  12. Development of a Global Fire Weather Database

    Science.gov (United States)

    Field, R. D.; Spessa, A. C.; Aziz, N. A.; Camia, A.; Cantin, A.; Carr, R.; de Groot, W. J.; Dowdy, A. J.; Flannigan, M. D.; Manomaiphiboon, K.; Pappenberger, F.; Tanpipat, V.; Wang, X.

    2015-06-01

    The Canadian Forest Fire Weather Index (FWI) System is the mostly widely used fire danger rating system in the world. We have developed a global database of daily FWI System calculations, beginning in 1980, called the Global Fire WEather Database (GFWED) gridded to a spatial resolution of 0.5° latitude by 2/3° longitude. Input weather data were obtained from the NASA Modern Era Retrospective-Analysis for Research and Applications (MERRA), and two different estimates of daily precipitation from rain gauges over land. FWI System Drought Code calculations from the gridded data sets were compared to calculations from individual weather station data for a representative set of 48 stations in North, Central and South America, Europe, Russia, Southeast Asia and Australia. Agreement between gridded calculations and the station-based calculations tended to be most different at low latitudes for strictly MERRA-based calculations. Strong biases could be seen in either direction: MERRA DC over the Mato Grosso in Brazil reached unrealistically high values exceeding DC = 1500 during the dry season but was too low over Southeast Asia during the dry season. These biases are consistent with those previously identified in MERRA's precipitation, and they reinforce the need to consider alternative sources of precipitation data. GFWED can be used for analyzing historical relationships between fire weather and fire activity at continental and global scales, in identifying large-scale atmosphere-ocean controls on fire weather, and calibration of FWI-based fire prediction models.

  13. University Real Estate Development Database: A Database-Driven Internet Research Tool

    Science.gov (United States)

    Wiewel, Wim; Kunst, Kara

    2008-01-01

    The University Real Estate Development Database is an Internet resource developed by the University of Baltimore for the Lincoln Institute of Land Policy, containing over six hundred cases of university expansion outside of traditional campus boundaries. The University Real Estate Development database is a searchable collection of real estate…

  14. University Real Estate Development Database: A Database-Driven Internet Research Tool

    Science.gov (United States)

    Wiewel, Wim; Kunst, Kara

    2008-01-01

    The University Real Estate Development Database is an Internet resource developed by the University of Baltimore for the Lincoln Institute of Land Policy, containing over six hundred cases of university expansion outside of traditional campus boundaries. The University Real Estate Development database is a searchable collection of real estate…

  15. Lessons Learned From Developing Reactor Pressure Vessel Steel Embrittlement Database

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Jy-An John [ORNL

    2010-08-01

    Materials behaviors caused by neutron irradiation under fission and/or fusion environments can be little understood without practical examination. Easily accessible material information system with large material database using effective computers is necessary for design of nuclear materials and analyses or simulations of the phenomena. The developed Embrittlement Data Base (EDB) at ORNL is this comprehensive collection of data. EDB database contains power reactor pressure vessel surveillance data, the material test reactor data, foreign reactor data (through bilateral agreements authorized by NRC), and the fracture toughness data. The lessons learned from building EDB program and the associated database management activity regarding Material Database Design Methodology, Architecture and the Embedded QA Protocol are described in this report. The development of IAEA International Database on Reactor Pressure Vessel Materials (IDRPVM) and the comparison of EDB database and IAEA IDRPVM database are provided in the report. The recommended database QA protocol and database infrastructure are also stated in the report.

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

    Directory of Open Access Journals (Sweden)

    Valentyn A. Filatov

    2012-12-01

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

  17. QTL Analysis in Tetraploid Cotton

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    QTL analyses were performed in tetraploid cotton.An interspecific F2 population consisting of 69 plants,which was developed from the cross between Gossypium hirsutum L.,cv.Handan 208(characterized as high fiber yield) and G.barbadense L.,cv.Pima 90(characterized as excellent fiber quality),was genotyped with SSR,RAPD,SRAP,and REMAP markers.A 1029-locus linkage map was

  18. Development of Nuclear Materials and Degradation Database

    Energy Technology Data Exchange (ETDEWEB)

    Shin, Ho Sang [Korea Institute of Nuclear Safety, Daejeon (Korea, Republic of); Park, Heung Bae [KEPCO Engineering and Construction Company, Seongnam (Korea, Republic of)

    2010-10-15

    There are about 440 operating nuclear power reactors in the world including 20 units from Korea. The average age of the reactors is more than 20 years and many of them are approaching to their original 30 or 40 years licensing terms. Even though some failures were reported in components or pipes of nuclear power plants (NPPs), these NPPs are considered to be too valuable to stop their operation at the end of design life. Therefore, the long-term operation of NPPs has become a worldwide trend based on technical and economic consideration. In order to ensure safe long-term operation of NPPs, it is increasingly necessary to adopt new approaches to deal with nuclear materials aging and degradation. Proactive Material Degradation Assessment (PMDA) is one of the key elements of these new approaches. Many kinds of background information such as materials and degradation history of components or piping in NPP plant are also needed for PMDA by the experts. Nuclear Materials and Degradation Database is being developed as a part of Nuclear Technology Revolution Project (NTRP) funded by the Ministry of Knowledge Economy (MKE)

  19. The Development of Ontology from Multiple Databases

    Science.gov (United States)

    Kasim, Shahreen; Aswa Omar, Nurul; Fudzee, Mohd Farhan Md; Azhar Ramli, Azizul; Aizi Salamat, Mohamad; Mahdin, Hairulnizam

    2017-08-01

    The area of halal industry is the fastest growing global business across the world. The halal food industry is thus crucial for Muslims all over the world as it serves to ensure them that the food items they consume daily are syariah compliant. Currently, ontology has been widely used in computer sciences area such as web on the heterogeneous information processing, semantic web, and information retrieval. However, ontology has still not been used widely in the halal industry. Today, Muslim community still have problem to verify halal status for products in the market especially foods consisting of E number. This research tried to solve problem in validating the halal status from various halal sources. There are various chemical ontology from multilple databases found to help this ontology development. The E numbers in this chemical ontology are codes for chemicals that can be used as food additives. With this E numbers ontology, Muslim community could identify and verify the halal status effectively for halal products in the market.

  20. 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...

  1. Marker list - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available uence of marker and related papers. Data file File name: pgdbj_dna_marker_linkage...isition method The information of markers was collected from other databases and/or papers. Data analysis me

  2. Plant DB link - PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us PGDBj Registered... Description Download License Update History of This Database Site Policy | Contact Us Plant DB link - PGDBj Registered

  3. 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…

  4. Recent development of wildlife transfer databases

    Energy Technology Data Exchange (ETDEWEB)

    Beresford, Nicholas A. [NERC Centre for Ecology and Hydrology, Lancaster Environment Center, Library Av., Bailrigg, Lancaster, LA1 4AP (United Kingdom); School of Environment and Life Sciences, University of Salford, Manchester, M4 4WT (United Kingdom); Copplestone, David [Biological and Environmental Sciences, University of Stirling, Stirling, FK9 4LA (United Kingdom); Hosseini, A.; Brown, Justin E. [Norwegian Radiation Protection Authority, P.O. Box 55, N-1332 Oesteraas (Norway); Johansen, Mathew P. [Australian Nuclear Science and Technology Organisation, New Illawarra Rd, Menai, NSW (Australia); Hirth, Gillian [Australian Radiation Protection and Nuclear Safety Agency, 619 Lower Plenty Rd, Yallambie, 3085, Victoria (Australia); Sheppard, Steve [ECOMatters Inc, WB Lewis Business Centre, 24 Aberdeen Avenue, Suite 105, Pinawa, Manitoba, R0E 1L0 (Canada); Dagher, Elias [Canadian Nuclear Safety Commission, Environmental Risk Assessment Division, 280 Slater, Ottawa, K1A0H3 (Canada); Yankovich, Tamara [International Atomic Energy Agency, Vienna International Centre, 1400, Vienna (Austria); Uchida, Shigeo [National Institute of Radiological Sciences, Chiba (Japan); Napier, Jon [Oregon State University, Oregon (United States); Outola, Iisa [STUK, P.O. Box 14, 00881 Helsinki (Finland); Wells, Claire; Howard, Brenda J.; Barnett, Catherine L. [NERC Centre for Ecology and Hydrology, Lancaster Environment Center, Library Av., Bailrigg, Lancaster, LA1 4AP (United Kingdom); Wood, Michael D. [School of Environment and Life Sciences, University of Salford, Manchester, M4 4WT (United Kingdom)

    2014-07-01

    The transfer of radionuclides to wildlife in the environmental radiological assessment models developed over the last two decades is most often described by the whole organism concentration ratio (CRwo-media). This parameter relates whole organism activity concentrations to those in environmental media (typically soil for terrestrial ecosystems and water for aquatic ecosystems). When first released in 2007, the ERICA Tool contained the most comprehensive and well documented CRwo-media database available for wildlife. It was subsequently used in the US DOE RESRAD-BIOTA model and formed the initial basis for the international wildlife transfer database (WTD; www.wildlifetransferdatabase.org/?) developed to support IAEA and ICRP activities. Subsequently, many additional data were input to the WTD, including the outputs of a review of Russian language literature and data from Canadian monitoring programmes associated with nuclear power plants, U-mining and related industries. Summarised data from the WTD in 2011 were used to provide CRwo values in ICRP 114 and the IAEA's handbook on wildlife transfer parameters (http://www-ns.iaea.org/projects/emras/emras2/working-groups/working-group-five.asp?s=8&l=63). This paper provides an update on the development of the WTD subsequent to 2011 and its application to derive revised default CRwo-media parameter values of the ERICA Tool. Since 2011, some circa 17,000 additional CRwo-media values have been added to the WTD. The new inputs include original data for: representative species of the ICRPs Representative Animals and Plants (RAPs) from a UK forest; monitoring data from Japanese estuaries and Finland; Canadian wildlife; plutonium uptake data from US weapons testing programme sites; wild plants and invertebrates from north western USA; refereed literature published after 2011. Additionally, data already in the WTD from Australia were reviewed with reference to original source reports not previously considered and amended

  5. "M" to "Moonless": Lexical Databases in Development.

    Science.gov (United States)

    Beam, Paul; Huntley, Frank

    This paper describes the characteristics of lexicographic software programs used in a module on Alexander Pope's "The Rape of the Lock," a major component of a course on computer-assisted learning (CAL) at the University of Waterloo in Ontario, Canada. Two of the databases are specific to that school and are small, individualized, and…

  6. Study of developing a database of energy statistics

    Energy Technology Data Exchange (ETDEWEB)

    Park, T.S. [Korea Energy Economics Institute, Euiwang (Korea, Republic of)

    1997-08-01

    An integrated energy database should be prepared in advance for managing energy statistics comprehensively. However, since much manpower and budget is required for developing an integrated energy database, it is difficult to establish a database within a short period of time. Therefore, this study sets the purpose in drawing methods to analyze existing statistical data lists and to consolidate insufficient data as first stage work for the energy database, and at the same time, in analyzing general concepts and the data structure of the database. I also studied the data content and items of energy databases in operation in international energy-related organizations such as IEA, APEC, Japan, and the USA as overseas cases as well as domestic conditions in energy databases, and the hardware operating systems of Japanese databases. I analyzed the making-out system of Korean energy databases, discussed the KEDB system which is representative of total energy databases, and present design concepts for new energy databases. In addition, I present the establishment directions and their contents of future Korean energy databases, data contents that should be collected by supply and demand statistics, and the establishment of data collection organization, etc. by analyzing the Korean energy statistical data and comparing them with the system of OECD/IEA. 26 refs., 15 figs., 11 tabs.

  7. QTL analysis using SNP markers developed by next-generation sequencing for identification of candidate genes controlling 4-methylthio-3-butenyl glucosinolate contents in roots of radish, Raphanus sativus L.

    Science.gov (United States)

    Zou, Zhongwei; Ishida, Masahiko; Li, Feng; Kakizaki, Tomohiro; Suzuki, Sho; Kitashiba, Hiroyasu; Nishio, Takeshi

    2013-01-01

    SNP markers for QTL analysis of 4-MTB-GSL contents in radish roots were developed by determining nucleotide sequences of bulked PCR products using a next-generation sequencer. DNA fragments were amplified from two radish lines by multiplex PCR with six primer pairs, and those amplified by 2,880 primer pairs were mixed and sequenced. By assembling sequence data, 1,953 SNPs in 750 DNA fragments, 437 of which have been previously mapped in a linkage map, were identified. A linkage map of nine linkage groups was constructed with 188 markers, and five QTLs were detected in two F(2) populations, three of them accounting for more than 50% of the total phenotypic variance being repeatedly detected. In the identified QTL regions, nine SNP markers were newly produced. By synteny analysis of the QTLs regions with Arabidopsis thaliana and Brassica rapa genome sequences, three candidate genes were selected, i.e., RsMAM3 for production of aliphatic glucosinolates linked to GSL-QTL-4, RsIPMDH1 for leucine biosynthesis showing strong co-expression with glucosinolate biosynthesis genes linked to GSL-QTL-2, and RsBCAT4 for branched-chain amino acid aminotransferase linked to GSL-QTL-1. Nucleotide sequences and expression of these genes suggested their possible function in 4MTB-GSL biosynthesis in radish roots.

  8. Saturation mapping of QTL region determining resistance specificity ...

    African Journals Online (AJOL)

    STORAGESEVER

    2009-09-01

    Sep 1, 2009 ... used for the validation of the QTL and further fine dissection of the same for the development of the .... 1.5 was used per test to claim the presence of a QTL. Among ... BLASTN, a rapid sequence comparison program. FASTA ..... quantitative trait nucleotide in affecting milk yield and composition. Proc. Natl.

  9. Databases

    Data.gov (United States)

    National Aeronautics and Space Administration — The databases of computational and experimental data from the first Aeroelastic Prediction Workshop are located here. The databases file names tell their contents by...

  10. Recent Developments in the NIST Atomic Databases

    Science.gov (United States)

    Kramida, Alexander

    2011-05-01

    New versions of the NIST Atomic Spectra Database (ASD, v. 4.0) and three bibliographic databases (Atomic Energy Levels and Spectra, v. 2.0, Atomic Transition Probabilities, v. 9.0, and Atomic Line Broadening and Shapes, v. 3.0) have recently been released. In this contribution I will describe the main changes in the way users get the data through the Web. The contents of ASD have been significantly extended. In particular, the data on highly ionized tungsten (W III-LXXIV) have been added from a recently published NIST compilation. The tables for Fe I and Fe II have been replaced with newer, much more extensive lists (10000 lines for Fe I). The other updated or new spectra include H, D, T, He I-II, Li I-III, Be I-IV, B I-V, C I-II, N I-II, O I-II, Na I-X, K I-XIX, and Hg I. The new version of ASD now incorporates data on isotopes of several elements. I will describe some of the issues the NIST ASD Team faces when updating the data.

  11. Management Guidelines for Database Developers' Teams in Software Development Projects

    Science.gov (United States)

    Rusu, Lazar; Lin, Yifeng; Hodosi, Georg

    Worldwide job market for database developers (DBDs) is continually increasing in last several years. In some companies, DBDs are organized as a special team (DBDs team) to support other projects and roles. As a new role, the DBDs team is facing a major problem that there are not any management guidelines for them. The team manager does not know which kinds of tasks should be assigned to this team and what practices should be used during DBDs work. Therefore in this paper we have developed a set of management guidelines, which includes 8 fundamental tasks and 17 practices from software development process, by using two methodologies Capability Maturity Model (CMM) and agile software development in particular Scrum in order to improve the DBDs team work. Moreover the management guidelines developed here has been complemented with practices from authors' experience in this area and has been evaluated in the case of a software company. The management guidelines for DBD teams presented in this paper could be very usefully for other companies too that are using a DBDs team and could contribute towards an increase of the efficiency of these teams in their work on software development projects.

  12. Development of a road materials database for Gautrans

    CSIR Research Space (South Africa)

    Paige-Green, P

    2004-03-01

    Full Text Available The data required for a road materials database was identified and a basic structure formulated during 2003. A set of Excel workbooks and associated worksheets was developed as a foundation for the database and as an interim means of gathering test...

  13. QTL Analysis in Tetraploid Cotton

    Institute of Scientific and Technical Information of China (English)

    LIN Zhong-xu; HE Dao-hua; WANG Hong-mei

    2008-01-01

    @@ QTL analyses were performed in tetraploid cotton.An interspecific F2population consisting of 69 plants,which was developed from the cross between Gossypium hirsutum L.,cv.Handan 208 (characterized as high fiber yield) and G.barbadense L.,cv.Pima 90 (characterized as excellent fiber quality),was genotyped with SSR,RAPD,SRAP,and REMAP markers.A 1029-1ocus linkage map was constructed covering 5472.3 cM with an average distance of 5.32 cM between two markers.

  14. Database for protein adsorption: update on developments

    Science.gov (United States)

    Paszek, Ewa; Vasina, Elena N.; Nicolau, Dan V.

    2008-12-01

    Protein adsorption at solid-liquid interfaces is critical to many applications, including biomaterials, protein microarrays and lab-on-a-chip devices. Despite this general interest, and a large amount of research in the last half a century, protein adsorption cannot be predicted with an engineering level, design-orientated accuracy. Here we describe a Biomolecular Adsorption Database (BAD), freely available online, which archives the published protein adsorption data. Piecewise linear regression with breakpoint applied to the data in the BAD suggests that the input variables to protein adsorption, i.e., protein concentration in solution; protein descriptors derived from primary structure (number of residues, protein hydrophobicity and spread of amino acid hydrophobicity, isoelectric point); surface descriptors (contact angle); and fluid environment descriptors (pH, ionic strength), correlate well with the output variable - the protein concentration on the surface. Furthermore, neural network analysis revealed that the size of the BAD makes it sufficiently representative, with a neural network-based predictive error of 5% or less. Interestingly, a consistently better fit is obtained if the BAD is divided into two separate subsets representing protein adsorption on hydrophilic and hydrophobic surfaces. Based on these findings, selected entries from the BAD have been used to construct neural network-based estimation routines, which predict the amount of adsorbed protein, the thickness of the absorbed layer and the surface tension of the proteincovered surface. While the BAD is of general interest, the prediction of the thickness and the surface tension of the protein-covered layers are of particular relevance to the design of microfluidics devices.

  15. xQTL workbench : a scalable web environment for multi-level QTL analysis

    NARCIS (Netherlands)

    Arends, Danny; van der Velde, K. Joeri; Prins, Pjotr; Broman, Karl W.; Moller, Steffen; Jansen, Ritsert C.; Swertz, Morris A.

    2012-01-01

    xQTL workbench is a scalable web platform for the mapping of quantitative trait loci (QTLs) at multiple levels: for example gene expression (eQTL), protein abundance (pQTL), metabolite abundance (mQTL) and phenotype (phQTL) data. Popular QTL mapping methods for model organism and human populations

  16. xQTL workbench: a scalable web environment for multi-level QTL analysis

    NARCIS (Netherlands)

    Arends, D.; Velde, van der K.J.; Prins, J.C.P.; Broman, K.W.; Möller, S.; Jansen, R.C.; Swertz, M.A.

    2012-01-01

    Summary: xQTL workbench is a scalable web platform for the mapping of quantitative trait loci (QTLs) at multiple levels: for example gene expression (eQTL), protein abundance (pQTL), metabolite abundance (mQTL) and phenotype (phQTL) data. Popular QTL mapping methods for model organism and human

  17. The development and purpose of the FREDERICA radiation effects database.

    Science.gov (United States)

    Copplestone, D; Hingston, J; Real, A

    2008-09-01

    Any system for assessing the impact of a contaminant on the environment requires an analysis of the possible effects on the organisms and ecosystems concerned. To facilitate this, the FREDERICA radiation effects database has been developed to provide an online search of the known effects of ionising radiation on non-human species, taken from papers in the scientific peer reviewed literature. The FREDERICA radiation effects database has been produced by merging the work done on radiation effects under two European funded projects (FASSET and EPIC) and making the database available online. This paper highlights applications for the database, gaps in the available data and explains the use of quality scores to help users of the database determine which papers may benefit their research in terms of techniques and reproducibility.

  18. Improving Drought Tolerance of Rice by Designed QTL Pyramiding

    Institute of Scientific and Technical Information of China (English)

    Z.K. Li; Y. Sun; L.H. Zhu; D. Dwivedi; Y.M. Gao; T.Q. Zheng; R. Lafitte; J.L. Xu; D. Mackill; B.Y. Fu; J.Domingo

    2007-01-01

    @@ Drought is the most important factor limiting rice yields in the rainfed areas of Asia. To overcome the problem, we developed a new strategy 'designed QTL pyramiding' to more efficiently develop drought tolerant (DT)rice cultivars.

  19. Developing, evaluating and maintaining a standardized stormwater BMP effectiveness database.

    Science.gov (United States)

    Clary, J; Urbonas, B; Jones, J; Strecker, E; Quigley, M; O'Brien, J

    2002-01-01

    The Urban Water Resources Research Council of the American Society of Civil Engineers, under a cooperative agreement with the US Environmental Protection Agency, released Version 1.0 of the National Stormwater Best Management Practices (BMP) Database to the stormwater management community in 1999. The product included a loaded database of 71 BMPs, as well as data entry software for standardized reporting of BMP test data. In conjunction with the database, the project team developed BMP performance evaluation protocols and applied them to the data contained in the initial database. Since the initial database release, 42 new BMP data sets have been added to the database, which is now accessible via the Internet at www.bmpdatabase.org along with associated data evaluation reports and other project documentation. A national stormwater BMP data clearinghouse continues to screen and post new BMP data to the database, as well as respond to inquiries from the public. An overview of both of the database software and results of the data evaluation are provided in this paper.

  20. Conditional QTL mapping of oil content in rapeseed with respect to protein content and traits related to plant development and grain yield.

    Science.gov (United States)

    Zhao, Jianyi; Becker, Heiko C; Zhang, Dongqing; Zhang, Yaofeng; Ecke, Wolfgang

    2006-06-01

    Oil content in rapeseed (Brassica napus L.) is generally regarded as a character with high heritability that is negatively correlated with protein content and influenced by plant developmental and yield related traits. To evaluate possible genetic interrelationships between these traits and oil content, QTL for oil content were mapped using data on oil content and on oil content conditioned on the putatively interrelated traits. Phenotypic data were evaluated in a segregating doubled haploid population of 282 lines derived from the F(1) of a cross between the old German cultivar Sollux and the Chinese cultivar Gaoyou. The material was tested at four locations, two each in Germany and in China. QTLMapper version 1.0 was used for mapping unconditional and conditional QTL with additive (a) and locus pairs with additive x additive epistatic (aa) effects. Clear evidence was found for a strong genetic relationship between oil and protein content. Six QTL and nine epistatic locus pairs were found, which had pleiotropic effects on both traits. Nevertheless, two QTL were also identified, which control oil content independent from protein content and which could be used in practical breeding programs to increase oil content without affecting seed protein content. In addition, six additional QTL with small effects were only identified in the conditional mapping. Some evidence was apparent for a genetic interrelationship between oil content and the number of seeds per silique but no evidence was found for a genetic relationship between oil content and flowering time, grain filling period or single seed weight. The results indicate that for closely correlated traits conditional QTL mapping can be used to dissect the genetic interrelationship between two traits at the level of individual QTL. Furthermore, conditional QTL mapping can reveal additional QTL with small effects that are undetectable in unconditional mapping.

  1. Composite interval mapping of QTL for dynamic traits

    Institute of Scientific and Technical Information of China (English)

    GAO Huijiang; YANG Runqing

    2006-01-01

    Many economically important quantitative traits in animals and plants are measured repeatedly over time. These traits are called dynamic traits. Mapping QTL controlling the phenotypic profiles of dynamic traits has become an interesting topic for animal and plant breeders. However, statistical methods of QTL mapping for dynamic traits have not been well developed. We develop a composite interval mapping approach to detecting QTL for dynamic traits. We fit the profile of each QTL effect with Legendre polynomials. Parameter estimation and statistical test are performed on the regression coefficients of the polynomials under the maximum likelihood framework. Maximum likelihood estimates of QTL parameters are obtained via the EM algorithm. Results of simulation study showed that composite interval mapping can improve both the statistcial power of QTL detecting and the accuracy of parameter estimation relative to the simply interval mapping procedure where only one QTL is fit to each model. The method is developed in the context of an F2 mapping population, but extension to other types of mapping populations is straightforward.

  2. A Database Practicum for Teaching Database Administration and Software Development at Regis University

    Science.gov (United States)

    Mason, Robert T.

    2013-01-01

    This research paper compares a database practicum at the Regis University College for Professional Studies (CPS) with technology oriented practicums at other universities. Successful andragogy for technology courses can motivate students to develop a genuine interest in the subject, share their knowledge with peers and can inspire students to…

  3. A Database Practicum for Teaching Database Administration and Software Development at Regis University

    Science.gov (United States)

    Mason, Robert T.

    2013-01-01

    This research paper compares a database practicum at the Regis University College for Professional Studies (CPS) with technology oriented practicums at other universities. Successful andragogy for technology courses can motivate students to develop a genuine interest in the subject, share their knowledge with peers and can inspire students to…

  4. Planned and ongoing projects (pop) database: development and results.

    Science.gov (United States)

    Wild, Claudia; Erdös, Judit; Warmuth, Marisa; Hinterreiter, Gerda; Krämer, Peter; Chalon, Patrice

    2014-11-01

    The aim of this study was to present the development, structure and results of a database on planned and ongoing health technology assessment (HTA) projects (POP Database) in Europe. The POP Database (POP DB) was set up in an iterative process from a basic Excel sheet to a multifunctional electronic online database. The functionalities, such as the search terminology, the procedures to fill and update the database, the access rules to enter the database, as well as the maintenance roles, were defined in a multistep participatory feedback loop with EUnetHTA Partners. The POP Database has become an online database that hosts not only the titles and MeSH categorizations, but also some basic information on status and contact details about the listed projects of EUnetHTA Partners. Currently, it stores more than 1,200 planned, ongoing or recently published projects of forty-three EUnetHTA Partners from twenty-four countries. Because the POP Database aims to facilitate collaboration, it also provides a matching system to assist in identifying similar projects. Overall, more than 10 percent of the projects in the database are identical both in terms of pathology (indication or disease) and technology (drug, medical device, intervention). In addition, approximately 30 percent of the projects are similar, meaning that they have at least some overlap in content. Although the POP DB is successful concerning regular updates of most national HTA agencies within EUnetHTA, little is known about its actual effects on collaborations in Europe. Moreover, many non-nationally nominated HTA producing agencies neither have access to the POP DB nor can share their projects.

  5. Discovering genes underlying QTL

    Energy Technology Data Exchange (ETDEWEB)

    Vanavichit, Apichart [Kasetsart University, Kamphaengsaen, Nakorn Pathom (Thailand)

    2002-02-01

    A map-based approach has allowed scientists to discover few genes at a time. In addition, the reproductive barrier between cultivated rice and wild relatives has prevented us from utilizing the germ plasm by a map-based approach. Most genetic traits important to agriculture or human diseases are manifested as observable, quantitative phenotypes called Quantitative Trait Loci (QTL). In many instances, the complexity of the phenotype/genotype interaction and the general lack of clearly identifiable gene products render the direct molecular cloning approach ineffective, thus additional strategies like genome mapping are required to identify the QTL in question. Genome mapping requires no prior knowledge of the gene function, but utilizes statistical methods to identify the most likely gene location. To completely characterize genes of interest, the initially mapped region of a gene location will have to be narrowed down to a size that is suitable for cloning and sequencing. Strategies for gene identification within the critical region have to be applied after the sequencing of a potentially large clone or set of clones that contains this gene(s). Tremendous success of positional cloning has been shown for cloning many genes responsible for human diseases, including cystic fibrosis and muscular dystrophy as well as plant disease resistance genes. Genome and QTL mapping, positional cloning: the pre-genomics era, comparative approaches to gene identification, and positional cloning: the genomics era are discussed in the report. (M. Suetake)

  6. Development and trial of the drug interaction database system

    Directory of Open Access Journals (Sweden)

    Virasakdi Chongsuvivatwong

    2003-07-01

    Full Text Available The drug interaction database system was originally developed at Songklanagarind Hospital. Data sets of drugs available in Songklanagarind Hospital comprising standard drug names, trade names, group names, and drug interactions were set up using Microsoft® Access 2000. The computer used was a Pentium III processor running at 450 MHz with 128 MB SDRAM operated by Microsoft® Windows 98. A robust structured query language algorithm was chosen for detecting interactions. The functioning of this database system, including speed and accuracy of detection, was tested at Songklanagarind Hospital and Naratiwatrachanagarind Hospital using hypothetical prescriptions. Its use in determining the incidence of drug interactions was also evaluated using a retrospective prescription data file. This study has shown that the database system correctly detected drug interactions from prescriptions. Speed of detection was approximately 1 to 2 seconds depending on the size of prescription. The database system was of benefit in determining of incidence rate of drug interaction in a hospital.

  7. Development of a Relational Database for Learning Management Systems

    Science.gov (United States)

    Deperlioglu, Omer; Sarpkaya, Yilmaz; Ergun, Ertugrul

    2011-01-01

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

  8. The ID Database: Managing the Instructional Development Process

    Science.gov (United States)

    Piña, Anthony A.; Sanford, Barry K.

    2017-01-01

    Management is evolving as a foundational domain to the field of instructional design and technology. However, there are few tools dedicated to the management of instructional design and development projects and activities. In this article, we describe the development, features and implementation of an instructional design database--built from a…

  9. Development of the ageing management database of PUSPATI TRIGA reactor

    Energy Technology Data Exchange (ETDEWEB)

    Ramli, Nurhayati, E-mail: nurhayati@nm.gov.my; Tom, Phongsakorn Prak; Husain, Nurfazila; Farid, Mohd Fairus Abd; Ramli, Shaharum [Reactor Technology Centre, Malaysian Nuclear Agency, MOSTI, Bangi, 43000 Kajang, Selangor (Malaysia); Maskin, Mazleha [Science Program, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Selangor (Malaysia); Adnan, Amirul Syazwan; Abidin, Nurul Husna Zainal [Faculty of Petroleum and Renewable Energy Engineering, Universiti Teknologi Malaysia (Malaysia)

    2016-01-22

    Since its first criticality in 1982, PUSPATI TRIGA Reactor (RTP) has been operated for more than 30 years. As RTP become older, ageing problems have been seen to be the prominent issues. In addressing the ageing issues, an Ageing Management (AgeM) database for managing related ageing matters was systematically developed. This paper presents the development of AgeM database taking into account all RTP major Systems, Structures and Components (SSCs) and ageing mechanism of these SSCs through the system surveillance program.

  10. Analysis of digenic epistatic effects and QE interaction effects QTL controlling grain weight in rice

    Institute of Scientific and Technical Information of China (English)

    高用明; 朱军; 宋佑胜; 何慈信; 石春海; 邢永忠

    2004-01-01

    Immortalized F2 population of rice (Oryza sativa L.) was developed by randomly mating F1 among recombinant inbred (RI) lines derived from (Zhenshan 97B×Minghui 63),which allowed replications within and across environments.QTL (quantitative trait loci) mapping analysis on kilo-grain weight of immortalized F2 population was performed by using newly developed software for QTL mapping,QTL Mapper 2.0. Eleven distinctly digenic epistatic loci included a total of 15 QTL were located on eight chromosomes.QTL main effects of additive,dominance,and additive×additive,additive×dominance,and dominance×dominance interactions were estimated.Interaction effects between QTL main effects and environments (QE) were predicted.Less than 40% of single effects,most of which were additive effects,for identified QTL were significant at 5% level.The directional difference for QTL main effects suggested that these QTL were distributed in parents in the repulsion phase.This should make it feasible to improve kilo-grain weight of both parents by selecting appropriate new recombinants. Only few of the QE interaction effects were significant.Application prospect for QTL mapping achievements in genetic breeding was discussed.

  11. M4FT-16LL080302052-Update to Thermodynamic Database Development and Sorption Database Integration

    Energy Technology Data Exchange (ETDEWEB)

    Zavarin, Mavrik [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). Glenn T. Seaborg Inst.. Physical and Life Sciences; Wolery, T. J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). Akima Infrastructure Services, LLC; Atkins-Duffin, C. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). Global Security

    2016-08-16

    This progress report (Level 4 Milestone Number M4FT-16LL080302052) summarizes research conducted at Lawrence Livermore National Laboratory (LLNL) within the Argillite Disposal R&D Work Package Number FT-16LL08030205. The focus of this research is the thermodynamic modeling of Engineered Barrier System (EBS) materials and properties and development of thermodynamic databases and models to evaluate the stability of EBS materials and their interactions with fluids at various physico-chemical conditions relevant to subsurface repository environments. The development and implementation of equilibrium thermodynamic models are intended to describe chemical and physical processes such as solubility, sorption, and diffusion.

  12. A Database Design and Development Case: Home Theater Video

    Science.gov (United States)

    Ballenger, Robert; Pratt, Renee

    2012-01-01

    This case consists of a business scenario of a small video rental store, Home Theater Video, which provides background information, a description of the functional business requirements, and sample data. The case provides sufficient information to design and develop a moderately complex database to assist Home Theater Video in solving their…

  13. Karst database development in Minnesota: Design and data assembly

    Science.gov (United States)

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

    2005-01-01

    The Karst Feature Database (KFD) of Minnesota is a relational GIS-based Database Management System (DBMS). Previous karst feature datasets used inconsistent attributes to describe karst features in different areas of Minnesota. Existing metadata were modified and standardized to represent a comprehensive metadata for all the karst features in Minnesota. Microsoft Access 2000 and ArcView 3.2 were used to develop this working database. Existing county and sub-county karst feature datasets have been assembled into the KFD, which is capable of visualizing and analyzing the entire data set. By November 17 2002, 11,682 karst features were stored in the KFD of Minnesota. Data tables are stored in a Microsoft Access 2000 DBMS and linked to corresponding ArcView applications. The current KFD of Minnesota has been moved from a Windows NT server to a Windows 2000 Citrix server accessible to researchers and planners through networked interfaces. ?? Springer-Verlag 2005.

  14. Research and development of Chinese LCA database and LCA software

    Institute of Scientific and Technical Information of China (English)

    GONG Xianzheng; NIE Zuoren; Wang Zhihong; ZUO Tieyong

    2006-01-01

    This paper detailed introduces the related work for building Chinese National Database, Sinocenter, of materials life cycle assessment (MLCA) and developing the environmental burden dataset of materials.The MLCA database was built in 2004, and the basic framework mainly includes LCA methodology, materials environmental dataset about energy consumption, resource input and environmental emissions.Nowadays, the database contains about fifty-thousand records of the main materials industries, such as cement, iron and steel, nonferrous metal, etc., and also includes the primary LCI data of fossil fuels and electricity grid in China.At the same time, the LCA method localization work is going on, for instance, calculated the resource characterization factors of 42 kinds of metal and 58 sorts of nonmetal, and also obtained some heavy metal impact factors in water.Based on the database, the iron and steel dataset has been developed with the data quality analysis, and some environmental burden data could be queried in our website, www.cnmlca.com, in the future.Lastly, according to the framework of the ISO14040 series standards, the antitype of Chinese LCA evaluation system was developed to support materials and products LCA evaluation in China.

  15. Meta-analysis of QTL involved in silage quality of maize and comparison with the position of candidate genes.

    Science.gov (United States)

    Truntzler, M; Barrière, Y; Sawkins, M C; Lespinasse, D; Betran, J; Charcosset, A; Moreau, L

    2010-11-01

    A meta-analysis of quantitative trait loci (QTL) associated with plant digestibility and cell wall composition in maize was carried out using results from 11 different mapping experiments. Statistical methods implemented in "MetaQTL" software were used to build a consensus map, project QTL positions and perform meta-analysis. Fifty-nine QTL for traits associated with digestibility and 150 QTL for traits associated with cell wall composition were included in the analysis. We identified 26 and 42 metaQTL for digestibility and cell wall composition traits, respectively. Fifteen metaQTL with confidence interval (CI) smaller than 10 cM were identified. As expected from trait correlations, 42% of metaQTL for digestibility displayed overlapping CIs with metaQTL for cell wall composition traits. Coincidences were particularly strong on chromosomes 1 and 3. In a second step, 356 genes selected from the MAIZEWALL database as candidates for the cell wall biosynthesis pathway were positioned on our consensus map. Colocalizations between candidate genes and metaQTL positions appeared globally significant based on χ(2) tests. This study contributed in identifying key chromosomal regions involved in silage quality and potentially associated genes for most of these regions. These genes deserve further investigation, in particular through association mapping.

  16. Development and mining of a volatile organic compound database.

    Science.gov (United States)

    Abdullah, Azian Azamimi; Altaf-Ul-Amin, Md; Ono, Naoaki; Sato, Tetsuo; Sugiura, Tadao; Morita, Aki Hirai; Katsuragi, Tetsuo; Muto, Ai; Nishioka, Takaaki; Kanaya, Shigehiko

    2015-01-01

    Volatile organic compounds (VOCs) are small molecules that exhibit high vapor pressure under ambient conditions and have low boiling points. Although VOCs contribute only a small proportion of the total metabolites produced by living organisms, they play an important role in chemical ecology specifically in the biological interactions between organisms and ecosystems. VOCs are also important in the health care field as they are presently used as a biomarker to detect various human diseases. Information on VOCs is scattered in the literature until now; however, there is still no available database describing VOCs and their biological activities. To attain this purpose, we have developed KNApSAcK Metabolite Ecology Database, which contains the information on the relationships between VOCs and their emitting organisms. The KNApSAcK Metabolite Ecology is also linked with the KNApSAcK Core and KNApSAcK Metabolite Activity Database to provide further information on the metabolites and their biological activities. The VOC database can be accessed online.

  17. Fine mapping of multiple QTL using combined linkage and linkage disequilibrium mapping – A comparison of single QTL and multi QTL methods

    Directory of Open Access Journals (Sweden)

    Meuwissen Theo HE

    2007-04-01

    Full Text Available Abstract Two previously described QTL mapping methods, which combine linkage analysis (LA and linkage disequilibrium analysis (LD, were compared for their ability to detect and map multiple QTL. The methods were tested on five different simulated data sets in which the exact QTL positions were known. Every simulated data set contained two QTL, but the distances between these QTL were varied from 15 to 150 cM. The results show that the single QTL mapping method (LDLA gave good results as long as the distance between the QTL was large (> 90 cM. When the distance between the QTL was reduced, the single QTL method had problems positioning the two QTL and tended to position only one QTL, i.e. a "ghost" QTL, in between the two real QTL positions. The multi QTL mapping method (MP-LDLA gave good results for all evaluated distances between the QTL. For the large distances between the QTL (> 90 cM the single QTL method more often positioned the QTL in the correct marker bracket, but considering the broader likelihood peaks of the single point method it could be argued that the multi QTL method was more precise. Since the distances were reduced the multi QTL method was clearly more accurate than the single QTL method. The two methods combine well, and together provide a good tool to position single or multiple QTL in practical situations, where the number of QTL and their positions are unknown.

  18. Development of a California commercial building benchmarking database

    Energy Technology Data Exchange (ETDEWEB)

    Kinney, Satkartar; Piette, Mary Ann

    2002-05-17

    Building energy benchmarking is a useful starting point for commercial building owners and operators to target energy savings opportunities. There are a number of tools and methods for benchmarking energy use. Benchmarking based on regional data can provides more relevant information for California buildings than national tools such as Energy Star. This paper discusses issues related to benchmarking commercial building energy use and the development of Cal-Arch, a building energy benchmarking database for California. Currently Cal-Arch uses existing survey data from California's Commercial End Use Survey (CEUS), a largely underutilized wealth of information collected by California's major utilities. Doe's Commercial Building Energy Consumption Survey (CBECS) is used by a similar tool, Arch, and by a number of other benchmarking tools. Future versions of Arch/Cal-Arch will utilize additional data sources including modeled data and individual buildings to expand the database.

  19. Development of Integrated PSA Database and Application Technology

    Energy Technology Data Exchange (ETDEWEB)

    Han, Sang Hoon; Park, Jin Hee; Kim, Seung Hwan; Choi, Sun Yeong; Jung, Woo Sik; Jeong, Kwang Sub; Ha Jae Joo; Yang, Joon Eon; Min Kyung Ran; Kim, Tae Woon

    2005-04-15

    The purpose of this project is to develop 1) the reliability database framework, 2) the methodology for the reactor trip and abnormal event analysis, and 3) the prototype PSA information DB system. We already have a part of the reactor trip and component reliability data. In this study, we extend the collection of data up to 2002. We construct the pilot reliability database for common cause failure and piping failure data. A reactor trip or a component failure may have an impact on the safety of a nuclear power plant. We perform the precursor analysis for such events that occurred in the KSNP, and to develop a procedure for the precursor analysis. A risk monitor provides a mean to trace the changes in the risk following the changes in the plant configurations. We develop a methodology incorporating the model of secondary system related to the reactor trip into the risk monitor model. We develop a prototype PSA information system for the UCN 3 and 4 PSA models where information for the PSA is inputted into the system such as PSA reports, analysis reports, thermal-hydraulic analysis results, system notebooks, and so on. We develop a unique coherent BDD method to quantify a fault tree and the fastest fault tree quantification engine FTREX. We develop quantification software for a full PSA model and a one top model.

  20. Development of a Comprehensive Database System for Safety Analyst.

    Science.gov (United States)

    Paz, Alexander; Veeramisti, Naveen; Khanal, Indira; Baker, Justin; de la Fuente-Mella, Hanns

    2015-01-01

    This study addressed barriers associated with the use of Safety Analyst, a state-of-the-art tool that has been developed to assist during the entire Traffic Safety Management process but that is not widely used due to a number of challenges as described in this paper. As part of this study, a comprehensive database system and tools to provide data to multiple traffic safety applications, with a focus on Safety Analyst, were developed. A number of data management tools were developed to extract, collect, transform, integrate, and load the data. The system includes consistency-checking capabilities to ensure the adequate insertion and update of data into the database. This system focused on data from roadways, ramps, intersections, and traffic characteristics for Safety Analyst. To test the proposed system and tools, data from Clark County, which is the largest county in Nevada and includes the cities of Las Vegas, Henderson, Boulder City, and North Las Vegas, was used. The database and Safety Analyst together help identify the sites with the potential for safety improvements. Specifically, this study examined the results from two case studies. The first case study, which identified sites having a potential for safety improvements with respect to fatal and all injury crashes, included all roadway elements and used default and calibrated Safety Performance Functions (SPFs). The second case study identified sites having a potential for safety improvements with respect to fatal and all injury crashes, specifically regarding intersections; it used default and calibrated SPFs as well. Conclusions were developed for the calibration of safety performance functions and the classification of site subtypes. Guidelines were provided about the selection of a particular network screening type or performance measure for network screening.

  1. Development of a Comprehensive Database System for Safety Analyst

    Directory of Open Access Journals (Sweden)

    Alexander Paz

    2015-01-01

    Full Text Available This study addressed barriers associated with the use of Safety Analyst, a state-of-the-art tool that has been developed to assist during the entire Traffic Safety Management process but that is not widely used due to a number of challenges as described in this paper. As part of this study, a comprehensive database system and tools to provide data to multiple traffic safety applications, with a focus on Safety Analyst, were developed. A number of data management tools were developed to extract, collect, transform, integrate, and load the data. The system includes consistency-checking capabilities to ensure the adequate insertion and update of data into the database. This system focused on data from roadways, ramps, intersections, and traffic characteristics for Safety Analyst. To test the proposed system and tools, data from Clark County, which is the largest county in Nevada and includes the cities of Las Vegas, Henderson, Boulder City, and North Las Vegas, was used. The database and Safety Analyst together help identify the sites with the potential for safety improvements. Specifically, this study examined the results from two case studies. The first case study, which identified sites having a potential for safety improvements with respect to fatal and all injury crashes, included all roadway elements and used default and calibrated Safety Performance Functions (SPFs. The second case study identified sites having a potential for safety improvements with respect to fatal and all injury crashes, specifically regarding intersections; it used default and calibrated SPFs as well. Conclusions were developed for the calibration of safety performance functions and the classification of site subtypes. Guidelines were provided about the selection of a particular network screening type or performance measure for network screening.

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

    Directory of Open Access Journals (Sweden)

    Raied Salman

    2015-11-01

    Full Text Available 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 and implemented using Object-Oriented Programming Language Java and Object-Relational Database Management System Oracle in multithreaded Operating System environment.

  3. Development of database and searching system for tool grinding

    Directory of Open Access Journals (Sweden)

    J.Y. Chen

    2008-02-01

    Full Text Available Purpose: For achieving the goal of saving time on the tool grinding and design, an efficient method of developing the data management and searching system for the standard cutting tools is proposed in this study.Design/methodology/approach: At first the tool grinding software with open architecture was employed to design and plan grinding processes for seven types of tools. According to the characteristics of tools (e.g. types, diameter, radius and so on, 4802 tool data were established in the relational database. Then, the SQL syntax was utilized to write the searching algorithms, and the human machine interfaces of the searching system for the tool database were developed by C++ Builder.Findings: For grinding a square end mill with two-flute, a half of time on the tool design and the change of production line for grinding other types of tools can be saved by means of our system. More specifically, the efficiency in terms of the approach and retract time was improved up to 40%, and an improvement of approximately 10.6% in the overall machining time can be achieved.Research limitations/implications: In fact, the used tool database in this study only includes some specific tools such as the square end mill. The step drill, taper tools, and special tools can also be taken into account in the database for future research.Practical implications: The most commercial tool grinding software is the modular-based design and use tool shapes to construct the CAM interface. Some limitations on the tool design are undesirable for customers. On the contrary, employing not only the grinding processes to construct the grinding path of tools but the searching system combined with the grinding software, it gives more flexible for one to design new tools.Originality/value: A novel tool database and searching system is presented for tool grinding. Using this system can save time and provide more convenience on designing tools and grinding. In other words, the

  4. Development of an Ada programming support environment database SEAD (Software Engineering and Ada Database) administration manual

    Science.gov (United States)

    Liaw, Morris; Evesson, Donna

    1988-01-01

    Software Engineering and Ada Database (SEAD) was developed to provide an information resource to NASA and NASA contractors with respect to Ada-based resources and activities which are available or underway either in NASA or elsewhere in the worldwide Ada community. The sharing of such information will reduce duplication of effort while improving quality in the development of future software systems. SEAD data is organized into five major areas: information regarding education and training resources which are relevant to the life cycle of Ada-based software engineering projects such as those in the Space Station program; research publications relevant to NASA projects such as the Space Station Program and conferences relating to Ada technology; the latest progress reports on Ada projects completed or in progress both within NASA and throughout the free world; Ada compilers and other commercial products that support Ada software development; and reusable Ada components generated both within NASA and from elsewhere in the free world. This classified listing of reusable components shall include descriptions of tools, libraries, and other components of interest to NASA. Sources for the data include technical newletters and periodicals, conference proceedings, the Ada Information Clearinghouse, product vendors, and project sponsors and contractors.

  5. The Development and Usage of the Overseas Sinology Database

    Directory of Open Access Journals (Sweden)

    Ling Bao

    2007-12-01

    Full Text Available The Overseas Sinology Database is composed of three databases: scholar, organization, and journal. The thesis database is regard as separate and is attached to the scholar database. The database information comes from major areas of the world, especially the countries adjacent to China, and updates are done continuously. The Sinology Database is in several different languages and should satisfy the differing needs of data collection and database application. The data quality is strictly controlled during the whole data life cycle, which includes data collection, processing, storage, and accessing. In addition, according to the standards and specifications of the metadata, metadata are created to accompany the data, which satisfies the cooperation among different databases. Finally, besides the function of searching, statistical calculation, and sorting, the database is also used for data mining and knowledge discovery. Through these methods, conclusions about changes in Sinology can be drawn, which will aid us in understanding the world and China in particular.

  6. QTL Information Table: 732 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qtl12.1 Resistance or Tolerance Drought tolerance Plant heigh at maturity SSR C)Int... G. (2007). A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop

  7. Modeling, Measurements, and Fundamental Database Development for Nonequilibrium Hypersonic Aerothermodynamics

    Science.gov (United States)

    Bose, Deepak

    2012-01-01

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

  8. Bayesian Variable Selection to identify QTL affecting a simulated quantitative trait

    NARCIS (Netherlands)

    Schurink, A.; Janss, L.L.G.; Heuven, H.C.M.

    2012-01-01

    Abstract Background: Recent developments in genetic technology and methodology enable accurate detection of QTL and estimation of breeding values, even in individuals without phenotypes. The QTL-MAS workshop offers the opportunity to test different methods to perform a genome-wide association study

  9. Development of component reliability database for an LMFBR

    Energy Technology Data Exchange (ETDEWEB)

    Kurisaka, Kenichi [Power Reactor and Nuclear Fuel Development Corp., Oarai, Ibaraki (Japan). Oarai Engineering Center

    1996-06-01

    As a part of safety study of fast reactors, the component reliability database and statistical analysis system (CORDS) was developed. The CORDS contains operating records and failure histories of components primarily used in sodium system of fast reactors and sodium test facilities in the U.S. and Japan. As a result, development of the CORDS made it possible: (1) efficiently to retrieve the operational records and failure histories using the interactive retrieval function, (2) systematically to quantify the failure rate considering difference of design specification, operating environment and age among components, and (3) to provide fundamental data based on the operating experience in examining repairability of failed components, common cause failures, or aging degradation and preventive maintenance. In addition, the component failure rate derived from the CORDS has been applied into probabilistic safety assessment of the Japanese prototype fast breeder reactor, etc. This paper describes the guideline of data collection and categorization, table structure of the database, the retrieval function, and the statistical analysis function of the CORDS in detail. (author).

  10. Fourteen Years of R/qtl: Just Barely Sustainable

    Directory of Open Access Journals (Sweden)

    Karl W Broman

    2014-07-01

    Full Text Available R/qtl is an R package for mapping quantitative trait loci (genetic loci that contribute to variation in quantitative traits in experimental crosses. Its development began in 2000. There have been 38 software releases since 2001. The latest release contains 35k lines of R code and 24k lines of C code, plus 15k lines of code for the documentation. Challenges in the development and maintenance of the software are discussed. A key to the success of R/qtl is that it remains a central tool for the chief developer's own research work, and so its maintenance is of selfish importance.

  11. Development of database on the distribution coefficient. 2. Preparation of database

    Energy Technology Data Exchange (ETDEWEB)

    Takebe, Shinichi; Abe, Masayoshi [Japan Atomic Energy Research Inst., Tokai, Ibaraki (Japan). Tokai Research Establishment

    2001-03-01

    The distribution coefficient is very important parameter for environmental impact assessment on the disposal of radioactive waste arising from research institutes. 'Database on the Distribution Coefficient' was built up from the informations which were obtained by the literature survey in the country for these various items such as value , measuring method and measurement condition of distribution coefficient, in order to select the reasonable distribution coefficient value on the utilization of this value in the safety evaluation. This report was explained about the outline on preparation of this database and was summarized as a use guide book of database. (author)

  12. Generic Natural Systems Evaluation - Thermodynamic Database Development and Data Management

    Energy Technology Data Exchange (ETDEWEB)

    Wolery, T W; Sutton, M

    2011-09-19

    , meaning that they use a large body of thermodynamic data, generally from a supporting database file, to sort out the various important reactions from a wide spectrum of possibilities, given specified inputs. Usually codes of this kind are used to construct models of initial aqueous solutions that represent initial conditions for some process, although sometimes these calculations also represent a desired end point. Such a calculation might be used to determine the major chemical species of a dissolved component, the solubility of a mineral or mineral-like solid, or to quantify deviation from equilibrium in the form of saturation indices. Reactive transport codes such as TOUGHREACT and NUFT generally require the user to determine which chemical species and reactions are important, and to provide the requisite set of information including thermodynamic data in an input file. Usually this information is abstracted from the output of a geochemical modeling code and its supporting thermodynamic data file. The Yucca Mountain Project (YMP) developed two qualified thermodynamic databases to model geochemical processes, including ones involving repository components such as spent fuel. The first of the two (BSC, 2007a) was for systems containing dilute aqueous solutions only, the other (BSC, 2007b) for systems involving concentrated aqueous solutions and incorporating a model for such based on Pitzer's (1991) equations. A 25 C-only database with similarities to the latter was also developed for the Waste Isolation Pilot Plant (WIPP, cf. Xiong, 2005). The NAGRA/PSI database (Hummel et al., 2002) was developed to support repository studies in Europe. The YMP databases are often used in non-repository studies, including studies of geothermal systems (e.g., Wolery and Carroll, 2010) and CO2 sequestration (e.g., Aines et al., 2011).

  13. Dynamic QTL and epistasis analysis on seedling root traits in upland cotton.

    Science.gov (United States)

    Liang, Qingzhi; Li, Pengbo; Hu, Cheng; Hua, Hua; Li, Zhaohu; Rong, Yihua; Wang, Kunbo; Hua, Jinping

    2014-04-01

    Roots are involved in acquisition of water and nutrients, as well as in providing structural support to plant. The root system provides a dynamic model for developmental analysis. Here, we investigated quantitative trait loci (QTL), dynamic conditional QTL and epistatic interactions for seedling root traits using an upland cotton F2 population and a constructed genetic map. Totally, 37 QTLs for root traits, 35 dynamic conditional QTLs based on the net increased amount of root traits (root tips, forks, length, surface area and volume) (i) after transplanting 10 days compared to 5 days, and (ii) after transplanting 15 days to 10 days were detected. Obvious dynamic characteristic of QTL and dynamic conditional QTL existed at different developmental stages of root because QTL and dynamic conditional QTL had not been detected simultaneously. We further confirmed that additive and dominance effects of QTL qRSA-chr1-1 in interval time 5 to 10 DAT (days after transplant) offset the effects in 10 to 15 DAT. Lots of two-locus interactions for root traits were identified unconditionally or dynamically, and a few epistatic interactions were only detected simultaneously in interval time of 5-10 DAT and 10-15 DAT, suggesting different interactive genetic mechanisms on root development at different stages. Dynamic conditional QTL and epistasis effects provide new attempts to understand the dynamics of roots and provide clues for root architecture selection in upland cotton.

  14. Developing a Thermodynamic Database for Lead-Based Alloys

    OpenAIRE

    Vaajamo, Iina

    2013-01-01

    The availability of advanced thermodynamic databases and software and the CALPHAD method allow different phenomena, i.e. phase transformations, and chemical reactions, to be evaluated mathematically by means of thermodynamic calculations. These calculations require internally consistent and reliable thermodynamic databases, such as the MTOX (metal-oxide-sulphide-fluoride) database. MTOX covers the thermodynamic data of the systems related to metal smelting and refining processes, where lead i...

  15. CycADS: an annotation database system to ease the development and update of BioCyc databases.

    Science.gov (United States)

    Vellozo, Augusto F; Véron, Amélie S; Baa-Puyoulet, Patrice; Huerta-Cepas, Jaime; Cottret, Ludovic; Febvay, Gérard; Calevro, Federica; Rahbé, Yvan; Douglas, Angela E; Gabaldón, Toni; Sagot, Marie-France; Charles, Hubert; Colella, Stefano

    2011-01-01

    In recent years, genomes from an increasing number of organisms have been sequenced, but their annotation remains a time-consuming process. The BioCyc databases offer a framework for the integrated analysis of metabolic networks. The Pathway tool software suite allows the automated construction of a database starting from an annotated genome, but it requires prior integration of all annotations into a specific summary file or into a GenBank file. To allow the easy creation and update of a BioCyc database starting from the multiple genome annotation resources available over time, we have developed an ad hoc data management system that we called Cyc Annotation Database System (CycADS). CycADS is centred on a specific database model and on a set of Java programs to import, filter and export relevant information. Data from GenBank and other annotation sources (including for example: KAAS, PRIAM, Blast2GO and PhylomeDB) are collected into a database to be subsequently filtered and extracted to generate a complete annotation file. This file is then used to build an enriched BioCyc database using the PathoLogic program of Pathway Tools. The CycADS pipeline for annotation management was used to build the AcypiCyc database for the pea aphid (Acyrthosiphon pisum) whose genome was recently sequenced. The AcypiCyc database webpage includes also, for comparative analyses, two other metabolic reconstruction BioCyc databases generated using CycADS: TricaCyc for Tribolium castaneum and DromeCyc for Drosophila melanogaster. Linked to its flexible design, CycADS offers a powerful software tool for the generation and regular updating of enriched BioCyc databases. The CycADS system is particularly suited for metabolic gene annotation and network reconstruction in newly sequenced genomes. Because of the uniform annotation used for metabolic network reconstruction, CycADS is particularly useful for comparative analysis of the metabolism of different organisms. Database URL: http://www.cycadsys.org.

  16. Genetic effects of polymorphisms in candidate genes and the QTL region on chicken age at first egg

    Directory of Open Access Journals (Sweden)

    Zhou Min

    2011-04-01

    Full Text Available Abstract Background The age at first egg (AFE, an important indicator for sexual maturation in female chickens, is controlled by polygenes. Based on our knowledge of reproductive physiology, 6 genes including gonadotrophin releasing hormone-I (GnRH-I, neuropeptide Y (NPY, dopamine D2 receptor (DRD2, vasoactive intestinal polypeptide (VIP, VIP receptor-1 (VIPR-1, and prolactin (PRL, were selected as candidates for influencing AFE. Additionally, the region between ADL0201 and MCW0241 of chromosome Z was chosen as the candidate QTL region according to some QTL databases. The objective of the present study was to investigate the effects of mutations in candidate genes and the QTL region on chicken AFE. Results Marker-trait association analysis of 8 mutations in those 6 genes in a Chinese native population found a highly significant association (P G840327C of the GnRH-I gene with AFE, and it remained significant even with Bonferroni correction. Based on the results of the 2-tailed χ2 test, mutations T32742394C, T32742468C, G32742603A, and C33379782T in the candidate QTL region of chromosome Z were selected for marker-trait association analysis. The haplotypes of T32742394C and T32742468C were significantly associated (P T32742394C and T32742468C were located in the intron region of the SH3-domain GRB2-like 2 (SH3GL2 gene, which appeared to be associated in the endocytosis and development of the oocyte. Conclusion This study found that G840327C of the GnRH-I gene and the haplotypes of T32742394C-T32742468C of the SH3GL2 gene were associated with the chicken AFE.

  17. Development of Multimedia Databases%多媒体数据库开发

    Institute of Scientific and Technical Information of China (English)

    李娟

    2001-01-01

    The paper starts with an introduction to the development process of database technologies. Then, it discusses the techniques and methods used to develop multimedia database. Finally, taking the Information Management System of Graduate Students as an example, it describes the design process of a simple multimedia database.

  18. Designing a Framework to Develop WEB Graphical Interfaces for ORACLE Databases - Web Dialog

    Directory of Open Access Journals (Sweden)

    Georgiana-Petruţa Fîntîneanu

    2009-01-01

    Full Text Available The present article aims to describe a project consisting in designing a framework of applications used to create graphical interfaces with an Oracle distributed database. The development of the project supposed the use of the latest technologies: database Oracle server, Tomcat web server, JDBC (Java library used for accessing a database, JSP and Tag Library (for the development of graphical interfaces.

  19. Development of Database for Accident Analysis in Indian Mines

    Science.gov (United States)

    Tripathy, Debi Prasad; Guru Raghavendra Reddy, K.

    2016-10-01

    Mining is a hazardous industry and high accident rates associated with underground mining is a cause of deep concern. Technological developments notwithstanding, rate of fatal accidents and reportable incidents have not shown corresponding levels of decline. This paper argues that adoption of appropriate safety standards by both mine management and the government may result in appreciable reduction in accident frequency. This can be achieved by using the technology in improving the working conditions, sensitising workers and managers about causes and prevention of accidents. Inputs required for a detailed analysis of an accident include information on location, time, type, cost of accident, victim, nature of injury, personal and environmental factors etc. Such information can be generated from data available in the standard coded accident report form. This paper presents a web based application for accident analysis in Indian mines during 2001-2013. An accident database (SafeStat) prototype based on Intranet of the TCP/IP agreement, as developed by the authors, is also discussed.

  20. Development of Database for Accident Analysis in Indian Mines

    Science.gov (United States)

    Tripathy, Debi Prasad; Guru Raghavendra Reddy, K.

    2015-08-01

    Mining is a hazardous industry and high accident rates associated with underground mining is a cause of deep concern. Technological developments notwithstanding, rate of fatal accidents and reportable incidents have not shown corresponding levels of decline. This paper argues that adoption of appropriate safety standards by both mine management and the government may result in appreciable reduction in accident frequency. This can be achieved by using the technology in improving the working conditions, sensitising workers and managers about causes and prevention of accidents. Inputs required for a detailed analysis of an accident include information on location, time, type, cost of accident, victim, nature of injury, personal and environmental factors etc. Such information can be generated from data available in the standard coded accident report form. This paper presents a web based application for accident analysis in Indian mines during 2001-2013. An accident database (SafeStat) prototype based on Intranet of the TCP/IP agreement, as developed by the authors, is also discussed.

  1. QTL mapping of powdery mildew resistance in WI 2757 cucumber (Cucumis sativus L.).

    Science.gov (United States)

    He, Xiaoming; Li, Yuhong; Pandey, Sudhakar; Yandell, Brain S; Pathak, Mamta; Weng, Yiqun

    2013-08-01

    Powdery mildew (PM) is a very important disease of cucumber (Cucumis sativus L.). Resistant cultivars have been deployed in production for a long time, but the genetic mechanisms of PM resistance in cucumber are not well understood. A 3-year QTL mapping study of PM resistance was conducted with 132 F2:3 families derived from two cucumber inbred lines WI 2757 (resistant) and True Lemon (susceptible). A genetic map covering 610.4 cM in seven linkage groups was developed with 240 SSR marker loci. Multiple QTL mapping analysis of molecular marker data and disease index of the hypocotyl, cotyledon and true leaf for responses to PM inoculation identified six genomic regions in four chromosomes harboring QTL for PM resistance in WI 2757. Among the six QTL, pm1.1 and pm1.2 in chromosome 1 conferred leaf resistance. Minor QTL pm3.1 (chromosome 3) and pm4.1 (chromosome 4) contributed to disease susceptibility. The two major QTL, pm5.1 and pm5.2 were located in an interval of ~40 cM in chromosome 5 with each explaining 21.0-74.5 % phenotypic variations. Data presented herein support two recessively inherited, linked major QTL in chromosome 5 plus minor QTL in other chromosomes that control the PM resistance in WI 2757. The QTL pm5.2 for hypocotyl resistance plays the most important role in host resistance. Multiple observations in the same year revealed the importance of scoring time in the detection of PM resistance QTL. Results of this study provided new insights into phenotypic and genetic mechanisms of powdery mildew resistance in cucumber.

  2. Detection of nitrogen deficiency QTL in juvenile wild barley introgression lines growing in a hydroponic system.

    Science.gov (United States)

    Hoffmann, Astrid; Maurer, Andreas; Pillen, Klaus

    2012-10-20

    In this report we studied the genetic regulation of juvenile development of wild barley introgression lines (S42ILs) under two contrasting hydroponic nitrogen (N) supplies. Ten shoot and root related traits were examined among 42 S42ILs and the recurrent parent 'Scarlett'. The traits included tiller number, leaf number, plant height, leaf and root length, leaf to root length ratio, shoots and root dry weight, shoot to root weight ratio, and chlorophyll content. Our aims were (1) to test the suitability of a hydroponic system for early detection of favourable S42ILs, (2) to locate quantitative trait loci (QTL) that control the examined traits, (3) to identify favourable wild barley alleles that improve trait performances in regard to N treatment and, finally, (4) to validate the identified QTL through comparison with previously reported QTL originating from the same parental cross. The phenotypic data were analysed in a mixed model association study to detect QTL. The post-hoc Dunnett test identified 28 S42ILs that revealed significant (P hydroponic N study corresponded to QTL that were also detected in field trials with adult plants of a similar S42IL set or of the original S42 population. For instance, S42IL-135, -136 and -137, revealed increasing Hsp effects for tiller number, leaf number, leaf length, plant height and leaf to root ratio on the long arm of chromosome 7H. These QTL correspond to QTL for ears per plant and plant height that were previously detected in field trials conducted with the same S42ILs or with the S42 population. Our results suggest that the QTL we identified under hydroponic N cultivation partly correspond to QTL detected in field experiments. Due to this finding, screening of plants in early developmental stages grown in a hydroponic system may be a fast and cost effective method for early QTL detection and marker-assisted allelic selection, potentially speeding up elite barley breeding programs.

  3. Fusarium head blight resistance QTL in the spring wheat cross Kenyon/86ISMN 2137

    Directory of Open Access Journals (Sweden)

    Curt A McCartney

    2016-10-01

    Full Text Available Fusarium head blight (FHB, caused by Fusarium graminearum, is a very important disease of wheat globally. Damage caused by F. graminearum includes reduced grain yield, reduced grain functional quality, and results in the presence of the trichothecene mycotoxin deoxynivalenol in Fusarium-damaged kernels. The development of FHB resistant wheat cultivars is an important component of integrated management. The objective of this study was to identify QTL for FHB resistance in a recombinant inbred line (RIL population of the spring wheat cross Kenyon/86ISMN 2137. Kenyon is a Canadian spring wheat, while 86ISMN 2137 is an unrelated spring wheat. The RIL population was evaluated for FHB resistance in six FHB nurseries. Nine additive effect QTL for FHB resistance were identified, six from Kenyon and three from 86ISMN 2137. Rht8 and Ppd-D1a co-located with two FHB resistance QTL on chromosome arm 2DS. A major QTL for FHB resistance from Kenyon (QFhb.crc-7D was identified on chromosome 7D. The QTL QFhb.crc-2D.4 from Kenyon mapped to the same region as a FHB resistance QTL from Wuhan-1 on chromosome arm 2DL. This result was unexpected since Kenyon does not share common ancestry with Wuhan-1. Other FHB resistance QTL on chromosomes 4A, 4D, and 5B also mapped to known locations of FHB resistance. Four digenic epistatic interactions were detected for FHB resistance, which involved eight QTL. None of these QTL were significant based upon additive effect QTL analysis. This study provides insight into the genetic basis of native FHB resistance in Canadian spring wheat.

  4. Development of 2010 national land cover database for the Nepal.

    Science.gov (United States)

    Uddin, Kabir; Shrestha, Him Lal; Murthy, M S R; Bajracharya, Birendra; Shrestha, Basanta; Gilani, Hammad; Pradhan, Sudip; Dangol, Bikash

    2015-01-15

    Land cover and its change analysis across the Hindu Kush Himalayan (HKH) region is realized as an urgent need to support diverse issues of environmental conservation. This study presents the first and most complete national land cover database of Nepal prepared using public domain Landsat TM data of 2010 and replicable methodology. The study estimated that 39.1% of Nepal is covered by forests and 29.83% by agriculture. Patch and edge forests constituting 23.4% of national forest cover revealed proximate biotic interferences over the forests. Core forests constituted 79.3% of forests of Protected areas where as 63% of area was under core forests in the outside protected area. Physiographic regions wise forest fragmentation analysis revealed specific conservation requirements for productive hill and mid mountain regions. Comparative analysis with Landsat TM based global land cover product showed difference of the order of 30-60% among different land cover classes stressing the need for significant improvements for national level adoption. The online web based land cover validation tool is developed for continual improvement of land cover product. The potential use of the data set for national and regional level sustainable land use planning strategies and meeting several global commitments also highlighted. Copyright © 2014 Elsevier Ltd. All rights reserved.

  5. QTL Analysis for Plant Height with Molecular Markers in Maize

    Institute of Scientific and Technical Information of China (English)

    YAN Jian-bing; TANG Hua; HUANG Yi-qin; SHI Yong-gang; ZHENG Yong-lian; LI Jian-sheng

    2003-01-01

    Plant height has become one of important agronomic traits with the increase of planting densityrecently and the rapid developments of molecular markers have provided powerful tools to localize importantagronomic QTL at the genomic level. The purposes of this investigation are to map plant height QTL with mo-lecular markers and to analyze their genetic effects in maize. An F2:3 population from an elite combination(Zong3 × 87-1) was utilized for evaluating plant height in two locations, Wuhan and Xiangfan, with a ran-domized complete block design. The mapping population included 266 F2:3 family lines. A genetic linkagemap, containing 150 SSR and 24 RFLP markers, was constructed, spanning a total of 2 531.6 cm with an av-erage interval of 14.5 cm. Totally 10 QTL affecting plant height were mapped on six different chromosomeswith the composite interval mapping. Seven of 10 QTL were detected in two locations. The contributions tophenotypic variations for the single QTL varied between 5.3 and 17.1%. Additive, partial dominance, domi-nance, and overdominance actions existed among all detected QTL affecting plant heights. A large number ofdigenic interactions for plant height were detected by two-way analyses of variance. 107 and 98 two-locus com-binations were found to be significant at a 0.01 probability level in two locations respectively. 23 of them weresimultaneously detected in both locations. They accounted for phenotypic variations of 4.5 -11%. It was no-ticed that a locus, umc1122, had digenic interactive effects with other four different loci for plant height,which distributed on three chromosomes. A few of plant height QTL was involved in significant digenic inter-actions, but most significant interactions occurred between markers that are not adjacent to mapped QTL.These results demonstrated that epistatic interactions might play an equal importance role as the single-locuseffects in determining plant height of maize.

  6. Diet History Questionnaire: Development of the DHQ Nutrient Database

    Science.gov (United States)

    The nutrient and food group database, created for analyzing the DHQ, is based on national dietary intake data from the 1994-96 US Department of Agriculture's Continuing Survey of Food Intake by Individuals (CSFII).

  7. Development of a Dependency Theory Toolbox for Database Design.

    Science.gov (United States)

    1987-12-01

    SDS) .......................... 15 2.3.3 Ceri and Gottlob .................................. 16 2.3.4 Relational Database Design Aid Version 1 (REDi...Ceri and Gottlob [8] - closure of a set of attributes - find minimal cover - determine keys - test for lossless joins - 3NF design - BCNF design 4...3.3 Ceri and Gottilob. In their normalization tool, Ceri and Gottlob implement several database design algorithms in the Prolog programming language

  8. Recent updates and developments to plant genome size databases

    Science.gov (United States)

    Garcia, Sònia; Leitch, Ilia J.; Anadon-Rosell, Alba; Canela, Miguel Á.; Gálvez, Francisco; Garnatje, Teresa; Gras, Airy; Hidalgo, Oriane; Johnston, Emmeline; Mas de Xaxars, Gemma; Pellicer, Jaume; Siljak-Yakovlev, Sonja; Vallès, Joan; Vitales, Daniel; Bennett, Michael D.

    2014-01-01

    Two plant genome size databases have been recently updated and/or extended: the Plant DNA C-values database (http://data.kew.org/cvalues), and GSAD, the Genome Size in Asteraceae database (http://www.asteraceaegenomesize.com). While the first provides information on nuclear DNA contents across land plants and some algal groups, the second is focused on one of the largest and most economically important angiosperm families, Asteraceae. Genome size data have numerous applications: they can be used in comparative studies on genome evolution, or as a tool to appraise the cost of whole-genome sequencing programs. The growing interest in genome size and increasing rate of data accumulation has necessitated the continued update of these databases. Currently, the Plant DNA C-values database (Release 6.0, Dec. 2012) contains data for 8510 species, while GSAD has 1219 species (Release 2.0, June 2013), representing increases of 17 and 51%, respectively, in the number of species with genome size data, compared with previous releases. Here we provide overviews of the most recent releases of each database, and outline new features of GSAD. The latter include (i) a tool to visually compare genome size data between species, (ii) the option to export data and (iii) a webpage containing information about flow cytometry protocols. PMID:24288377

  9. Development of a New Zealand database of plant virus and virus-like organisms

    NARCIS (Netherlands)

    Fletcher, J.D.; Lister, R.A.; Clover, G.R.G.; Horner, M.B.; Thomas, J.E.; Vlugt, van der R.A.A.; MacDiarmid, R.M.

    2009-01-01

    The recent 8th Australasian plant virology workshop in Rotorua, New Zealand, discussed the development of a New Zealand database of plant virus and virus-like organisms. Key points of discussion included: (i) the purpose of such a database; (ii) who would benefit from the information in a database;

  10. QTL identification of grain protein concentration and its genetic correlation with starch concentration and grain weight using two populations in maize (Zea mays L.)

    Indian Academy of Sciences (India)

    Yuling Li; Yanzhao Wang; Mengguan Wei; Xuehui Li; Jiafeng Fu

    2009-04-01

    Protein is one of the three main storage chemical components in maize grains, and is negatively correlated with starch concentration (SC). Our objective was to analyse the influence of genetic backgrounds on QTL detection for protein concentration (PC) and to reveal the molecular genetic associations between PC and both SC and grain weight (GWP). Two hundred and eighty-four (Pop1) and 265 (Pop2) F2:3 families were developed from two crosses between one high-oil maize inbred GY220 and two normal maize inbreds 8984 and 8622 respectively, and were genotyped with 185 and 173 pairs of SSR markers. PC, SC and GWP were evaluated under two environments. Composite interval mapping (CIM) and multiple interval mapping (MIM) methods were used to detect single-trait QTL for PC, and multiple-trait QTL for PC with both SC and GWP. No common QTL were shared between the two populations for their four and one PC QTL. Common QTL with opposite signs of effects for PC and SC/GWP were detected on three marker intervals at bins 6.07–6.08, 8.03 and 8.03–8.04. Multiple-traits QTL mapping showed that tightly-linked QTL, pleiotropic QTL and QTL having effects with opposite directions for PC and SC/GWP were all observed in Pop1, while all QTL reflected opposite effects in Pop2.

  11. Development and validation of a Database Forensic Metamodel (DBFM)

    Science.gov (United States)

    Al-dhaqm, Arafat; Razak, Shukor; Othman, Siti Hajar; Ngadi, Asri; Ahmed, Mohammed Nazir; Ali Mohammed, Abdulalem

    2017-01-01

    Database Forensics (DBF) is a widespread area of knowledge. It has many complex features and is well known amongst database investigators and practitioners. Several models and frameworks have been created specifically to allow knowledge-sharing and effective DBF activities. However, these are often narrow in focus and address specified database incident types. We have analysed 60 such models in an attempt to uncover how numerous DBF activities are really public even when the actions vary. We then generate a unified abstract view of DBF in the form of a metamodel. We identified, extracted, and proposed a common concept and reconciled concept definitions to propose a metamodel. We have applied a metamodelling process to guarantee that this metamodel is comprehensive and consistent. PMID:28146585

  12. Intelligent high-speed cutting database system development

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    In this paper,the components of a high-speed cutting system are analyzed firstly.The component variables of the high-speed cutting system are classified into four types:uncontrolled variables,process variables,control variables,and output variables.The relationships and interactions of these variables are discussed.Then,by analyzing and comparing intelligent reasoning methods frequently used,the hybrid reasoning is employed to build the high-speed cutting database system.Then,the data structures of high-speed cutting case base and databases are determined.Finally,the component parts and working process of the high-speed cutting database system on the basis of hybrid reasoning are presented.

  13. A New Advanced Backcross Tomato Population Enables High Resolution Leaf QTL Mapping and Gene Identification

    Directory of Open Access Journals (Sweden)

    Daniel Fulop

    2016-10-01

    Full Text Available Quantitative Trait Loci (QTL mapping is a powerful technique for dissecting the genetic basis of traits and species differences. Established tomato mapping populations between domesticated tomato (Solanum lycopersicum and its more distant interfertile relatives typically follow a near isogenic line (NIL design, such as the S. pennellii Introgression Line (IL population, with a single wild introgression per line in an otherwise domesticated genetic background. Here, we report on a new advanced backcross QTL mapping resource for tomato, derived from a cross between the M82 tomato cultivar and S. pennellii. This so-called Backcrossed Inbred Line (BIL population is comprised of a mix of BC2 and BC3 lines, with domesticated tomato as the recurrent parent. The BIL population is complementary to the existing S. pennellii IL population, with which it shares parents. Using the BILs, we mapped traits for leaf complexity, leaflet shape, and flowering time. We demonstrate the utility of the BILs for fine-mapping QTL, particularly QTL initially mapped in the ILs, by fine-mapping several QTL to single or few candidate genes. Moreover, we confirm the value of a backcrossed population with multiple introgressions per line, such as the BILs, for epistatic QTL mapping. Our work was further enabled by the development of our own statistical inference and visualization tools, namely a heterogeneous hidden Markov model for genotyping the lines, and by using state-of-the-art sparse regression techniques for QTL mapping.

  14. Main Effect QTL with Dominance Determines Heterosis for Dynamic Plant Height in Upland Cotton.

    Science.gov (United States)

    Shang, Lianguang; Ma, Lingling; Wang, Yumei; Su, Ying; Wang, Xiaocui; Li, Yuhua; Abduweli, Abdugheni; Cai, Shihu; Liu, Fang; Wang, Kunbo; Hua, Jinping

    2016-10-13

    Plant height, which shows dynamic development and heterosis, is a major trait affecting plant architecture and has an indirect influence on economic yield related to biological yield in cotton. In the present study, we carried out dynamic analysis for plant height and its heterosis by quantitative trait loci (QTL) mapping at multiple developmental stages using two recombinant inbred lines (RILs) and their backcross progeny. At the single-locus level, 47 QTL were identified at five developmental stages in two hybrids. In backcross populations, QTL identified at an early stage mainly showed partial effects and QTL detected at a later stage mostly displayed overdominance effects. At the two-locus level, we found that main effect QTL played a more important role than epistatic QTL in the expression of heterosis in backcross populations. Therefore, this study implies that the genetic basis of plant height heterosis shows dynamic character and main effect QTL with dominance determines heterosis for plant height in Upland cotton. Copyright © 2016 Shang et al.

  15. Main Effect QTL with Dominance Determines Heterosis for Dynamic Plant Height in Upland Cotton

    Directory of Open Access Journals (Sweden)

    Lianguang Shang

    2016-10-01

    Full Text Available Plant height, which shows dynamic development and heterosis, is a major trait affecting plant architecture and has an indirect influence on economic yield related to biological yield in cotton. In the present study, we carried out dynamic analysis for plant height and its heterosis by quantitative trait loci (QTL mapping at multiple developmental stages using two recombinant inbred lines (RILs and their backcross progeny. At the single-locus level, 47 QTL were identified at five developmental stages in two hybrids. In backcross populations, QTL identified at an early stage mainly showed partial effects and QTL detected at a later stage mostly displayed overdominance effects. At the two-locus level, we found that main effect QTL played a more important role than epistatic QTL in the expression of heterosis in backcross populations. Therefore, this study implies that the genetic basis of plant height heterosis shows dynamic character and main effect QTL with dominance determines heterosis for plant height in Upland cotton.

  16. Development of Deduced Protein Database Using Variable Bit Binary Encoding

    Directory of Open Access Journals (Sweden)

    B. Parvathavarthini

    2008-01-01

    Full Text Available A large amount of biological data is semi-structured and stored in any one the following file formats such as flat, XML and relational files. These databases must be integrated with the structured data available in relational or object-oriented databases. The sequence matching process is difficult in such file format, because string comparison takes more computation cost and time. To reduce the memory storage size of amino acid sequence in protein database, a novel probability-based variable bit length encoding technique has been introduced. The number of mapping of triplet CODON for every amino acid evaluates the probability value. Then, a binary tree has been constructed to assign unique bits of binary codes to each amino acid. This derived unique bit pattern of amino acid replaces the existing fixed byte representation. The proof of reduced protein database space has been discussed and it is found to be reduced between 42.86 to 87.17%. To validate our method, we have collected few amino acid sequences of major organisms like Sheep, Lambda phage and etc from NCBI and represented them using proposed method. The comparison shows that of minimum and maximum reduction in storage space are 43.30% and 72.86% respectively. In future the biological data can further be reduced by applying lossless compression on this deduced data.

  17. Food composition database development for between country comparisons

    Directory of Open Access Journals (Sweden)

    Merchant Anwar T

    2006-01-01

    Full Text Available Abstract Nutritional assessment by diet analysis is a two-stepped process consisting of evaluation of food consumption, and conversion of food into nutrient intake by using a food composition database, which lists the mean nutritional values for a given food portion. Most reports in the literature focus on minimizing errors in estimation of food consumption but the selection of a specific food composition table used in nutrient estimation is also a source of errors. We are conducting a large prospective study internationally and need to compare diet, assessed by food frequency questionnaires, in a comparable manner between different countries. We have prepared a multi-country food composition database for nutrient estimation in all the countries participating in our study. The nutrient database is primarily based on the USDA food composition database, modified appropriately with reference to local food composition tables, and supplemented with recipes of locally eaten mixed dishes. By doing so we have ensured that the units of measurement, method of selection of foods for testing, and assays used for nutrient estimation are consistent and as current as possible, and yet have taken into account some local variations. Using this common metric for nutrient assessment will reduce differential errors in nutrient estimation and improve the validity of between-country comparisons.

  18. Home | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available f use, or is not downloadable, it may not be fully used, cited or rightly acknowledged by the (research) com... supports further contribution of each research to life science. Export All Metadata CSV Format JSON Format ...titute of Agrobiological Sciences Junichi Yonemaru QTL Rice The database of Rice QTL information extracted from published research

  19. Dynamic QTL analysis and candidate gene mapping for waterlogging tolerance at maize seedling stage.

    Directory of Open Access Journals (Sweden)

    Khalid A Osman

    Full Text Available Soil waterlogging is one of the major abiotic stresses adversely affecting maize growth and yield. To identify dynamic expression of genes or quantitative trait loci (QTL, QTL associated with plant height, root length, root dry weight, shoot dry weight and total dry weight were identified via conditional analysis in a mixed linear model and inclusive composite interval mapping method at three respective periods under waterlogging and control conditions. A total of 13, 19 and 23 QTL were detected at stages 3D|0D (the period during 0-3 d of waterlogging, 6D|3D and 9D|6D, respectively. The effects of each QTL were moderate and distributed over nine chromosomes, singly explaining 4.14-18.88% of the phenotypic variation. Six QTL (ph6-1, rl1-2, sdw4-1, sdw7-1, tdw4-1 and tdw7-1 were identified at two consistent stages of seedling development, which could reflect a continuous expression of genes; the remaining QTL were detected at only one stage. Thus, expression of most QTL was influenced by the developmental status. In order to provide additional evidence regarding the role of corresponding genes in waterlogging tolerance, mapping of Expressed Sequence Tags markers and microRNAs were conducted. Seven candidate genes were observed to co-localize with the identified QTL on chromosomes 1, 4, 6, 7 and 9, and may be important candidate genes for waterlogging tolerance. These results are a good starting point for understanding the genetic basis for selectively expressing of QTL in different stress periods and the common genetic control mechanism of the co-localized traits.

  20. Detection of nitrogen deficiency QTL in juvenile wild barley introgression lines growing in a hydroponic system

    Directory of Open Access Journals (Sweden)

    Hoffmann Astrid

    2012-10-01

    Full Text Available Abstract Background In this report we studied the genetic regulation of juvenile development of wild barley introgression lines (S42ILs under two contrasting hydroponic nitrogen (N supplies. Ten shoot and root related traits were examined among 42 S42ILs and the recurrent parent ‘Scarlett’. The traits included tiller number, leaf number, plant height, leaf and root length, leaf to root length ratio, shoots and root dry weight, shoot to root weight ratio, and chlorophyll content. Our aims were (1 to test the suitability of a hydroponic system for early detection of favourable S42ILs, (2 to locate quantitative trait loci (QTL that control the examined traits, (3 to identify favourable wild barley alleles that improve trait performances in regard to N treatment and, finally, (4 to validate the identified QTL through comparison with previously reported QTL originating from the same parental cross. Results The phenotypic data were analysed in a mixed model association study to detect QTL. The post-hoc Dunnett test identified 28 S42ILs that revealed significant (P Hsp effects for tiller number, leaf number, leaf length, plant height and leaf to root ratio on the long arm of chromosome 7H. These QTL correspond to QTL for ears per plant and plant height that were previously detected in field trials conducted with the same S42ILs or with the S42 population. Conclusion Our results suggest that the QTL we identified under hydroponic N cultivation partly correspond to QTL detected in field experiments. Due to this finding, screening of plants in early developmental stages grown in a hydroponic system may be a fast and cost effective method for early QTL detection and marker-assisted allelic selection, potentially speeding up elite barley breeding programs.

  1. Military Services Fitness Database: Development of a Computerized Physical Fitness and Weight Management Database for the U.S. Army

    Science.gov (United States)

    Williamson, Donald A.; Bathalon, Gaston P.; Sigrist, Lori D.; Allen, H. Raymond; Friedl, Karl E.; Young, Andrew J.; Martin, Corby K.; Stewart, Tiffany M.; Burrell, Lolita; Han, Hongmei; Hubbard, Van S.; Ryan, Donna

    2009-01-01

    The Department of Defense (DoD) has mandated development of a system to collect and manage data on the weight, percent body fat (%BF), and fitness of all military personnel. This project aimed to (1) develop a computerized weight and fitness database to track individuals and Army units over time allowing cross-sectional and longitudinal evaluations and (2) test the computerized system for feasibility and integrity of data collection over several years of usage. The computer application, the Military Services Fitness Database (MSFD), was designed for (1) storage and tracking of data related to height, weight, %BF for the Army Weight Control Program (AWCP) and Army Physical Fitness Test (APFT) scores and (2) generation of reports using these data. A 2.5-year pilot test of the MSFD indicated that it monitors population and individual trends of changing body weight, %BF, and fitness in a military population. PMID:19216292

  2. Reliability database development for use with an object-oriented fault tree evaluation program

    Science.gov (United States)

    Heger, A. Sharif; Harringtton, Robert J.; Koen, Billy V.; Patterson-Hine, F. Ann

    1989-01-01

    A description is given of the development of a fault-tree analysis method using object-oriented programming. In addition, the authors discuss the programs that have been developed or are under development to connect a fault-tree analysis routine to a reliability database. To assess the performance of the routines, a relational database simulating one of the nuclear power industry databases has been constructed. For a realistic assessment of the results of this project, the use of one of existing nuclear power reliability databases is planned.

  3. The Development of a Standard Database System for Republic of Korea Army’s Personnel Management.

    Science.gov (United States)

    1983-06-01

    for ROK Army personnel management ? Which data items should be incorporated in a database? Which tecnique should be applied to design data- bases using a...iD-Ri33 499 THE DEVELOPMENT OF A STANDARD DATABASE SYSTEM FOR i/i REPUBLIC OF KOREA ARMY’S PERSONNEL MANAGEMENT (U) NAVAL POSTGRADUATE SCHOOL MONTEREY...NAVAL POSTGRADUATE SCHOOL Monterey, California . THESIS THE DEVELOPMENT OF A STANDARD DATABASE SYSTEM FOR REPUBLIC OF KOREA ARMY’S PERSONNEL MANAGE

  4. Android as a platform for database application development case : Winha mobile

    OpenAIRE

    Muli, Joseph

    2013-01-01

    This thesis aims to help beginner Android developers and anyone interested in database intergration on Android Operating System understand the basic fundamentals on how to design database applications, specifically for mobile devices. A review of Android applications has been made to give an overview of the general properties of the applications in relation to database creation and management. To accomplish this thesis, SQL (Structured Query Language) and Android application development w...

  5. WormQTL-public archive and analysis web portal for natural variation data in Caenorhabditis spp

    NARCIS (Netherlands)

    Snoek, L. Basten; Van der Velde, K. Joeri; Arends, Danny; Li, Yang; Beyer, Antje; Elvin, Mark; Fisher, Jasmin; Hajnal, Alex; Hengartner, Michael O.; Poulin, Gino B.; Rodriguez, Miriam; Schmid, Tobias; Schrimpf, Sabine; Xue, Feng; Jansen, Ritsert C.; Kammenga, Jan E.; Swertz, Morris A.

    2013-01-01

    Here, we present WormQTL (http://www.wormqtl.org), an easily accessible database enabling search, comparative analysis and meta-analysis of all data on variation in Caenorhabditis spp. Over the past decade, Caenorhabditis elegans has become instrumental for molecular quantitative genetics and the sy

  6. Development of a maize molecular evolutionary genomic database.

    Science.gov (United States)

    Du, Chunguang; Buckler, Edward; Muse, Spencer

    2003-01-01

    PANZEA is the first public database for studying maize genomic diversity. It was initiated as a repository of genomic diversity for an NSF Plant Genome project on 'Maize Evolutionary Genomics'. PANZEA is hosted at the Bioinformatics Research Center, North Carolina State University, and is open to the public (http://statgen.ncsu.edu/panzea). PANZEA is designed to capture the interrelationships between germplasm, molecular diversity, phenotypic diversity and genome structure. It has the ability to store, integrate and visualize DNA sequence, enzymatic, SSR (simple sequence repeat) marker, germplasm and phenotypic data. The relational data model is selected and implemented in Oracle. An automated DNA sequence data submission tool has been created that allows project researchers to remotely submit their DNA sequence data directly to PANZEA. On-line database search forms and reports have been created to allow users to search or download germplasm, DNA sequence, gene/locus data and much more, directly from the web.

  7. Coordinate systems integration for development of malaysian craniofacial database.

    Science.gov (United States)

    Rajion, Zainul; Suwardhi, Deni; Setan, Halim; Chong, Albert; Majid, Zulkepli; Ahmad, Anuar; Rani Samsudin, Ab; Aziz, Izhar; Wan Harun, W A R

    2005-01-01

    This study presents a data registration method for craniofacial spatial data of different modalities. The data consists of three dimensional (3D) vector and raster data models. The data is stored in object relational database. The data capture devices are Laser scanner, CT (Computed Tomography) scan and CR (Close Range) Photogrammetry. The objective of the registration is to transform the data from various coordinate systems into a single 3-D Cartesian coordinate system. The standard error of the registration obtained from multimodal imaging devices using 3D affine transformation is in the ranged of 1-2 mm. This study is a step forward for storing the spatial craniofacial data in one reference system in database.

  8. Radiation damage of biomolecules (RADAM) database development: current status

    Science.gov (United States)

    Denifl, S.; Garcia, G.; Huber, B. A.; Marinković, B. P.; Mason, N.; Postler, J.; Rabus, H.; Rixon, G.; Solov'yov, A. V.; Suraud, E.; Yakubovich, A. V.

    2013-06-01

    Ion beam therapy offers the possibility of excellent dose localization for treatment of malignant tumours, minimizing radiation damage in normal tissue, while maximizing cell killing within the tumour. However, as the underlying dependent physical, chemical and biological processes are too complex to treat them on a purely analytical level, most of our current and future understanding will rely on computer simulations, based on mathematical equations, algorithms and last, but not least, on the available atomic and molecular data. The viability of the simulated output and the success of any computer simulation will be determined by these data, which are treated as the input variables in each computer simulation performed. The radiation research community lacks a complete database for the cross sections of all the different processes involved in ion beam induced damage: ionization and excitation cross sections for ions with liquid water and biological molecules, all the possible electron - medium interactions, dielectric response data, electron attachment to biomolecules etc. In this paper we discuss current progress in the creation of such a database, outline the roadmap of the project and review plans for the exploitation of such a database in future simulations.

  9. QTL mapping of thrips resistance in pepper

    NARCIS (Netherlands)

    Maharijaya, A.; Vosman, B.J.; Steenhuis-Broers, M.M.; Pelgrom, K.T.B.; Purwito, A.; Visser, R.G.F.; Voorrips, R.E.

    2015-01-01

    Thrips is one of the most damaging pests in pepper (Capsicum). Resistance to thrips was identified in Capsicum annuum. This study was aimed at the elucidation of the genetic background of thrips resistance in Capsicum through QTL mapping. The QTL analysis was carried out for Frankliniella

  10. QTL Information Table: 188 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 30 RZ801 pha Cao, G.Q., Zhu, J., He, C.X., Gao, Y.M., and Wu, P. (2001). QTL analysis for epistatic effects ...and QTL x environment interaction effects on final height of rice (Oryza sativa L.). Yi Chuan Xue Bao 28, 135-143. ...

  11. QTL Information Table: 73 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available GS3 Morphological trait Seed small grain, CAPS A)Physical BC3F2 Minghui 63 Chuan 7 ...hang, Q. (2006). GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in

  12. QTL Information Table: 728 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qtl12.1 Resistance or Tolerance Drought tolerance Grain yield SSR C)Interval F3 Way...Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  13. QTL Information Table: 729 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qtl12.1 Resistance or Tolerance Drought tolerance Biomass yield SSR C)Interval F3 W.... A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  14. QTL Information Table: 734 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qtl12.1 Resistance or Tolerance Drought tolerance Flowering delay SSR C)Interval F3...). A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  15. QTL Information Table: 730 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qtl12.1 Resistance or Tolerance Drought tolerance Harvest index SSR C)Interval F3 W... A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  16. A UML Profile for Developing Databases that Conform to the Third Manifesto

    Science.gov (United States)

    Eessaar, Erki

    The Third Manifesto (TTM) presents the principles of a relational database language that is free of deficiencies and ambiguities of SQL. There are database management systems that are created according to TTM. Developers need tools that support the development of databases by using these database management systems. UML is a widely used visual modeling language. It provides built-in extension mechanism that makes it possible to extend UML by creating profiles. In this paper, we introduce a UML profile for designing databases that correspond to the rules of TTM. We created the first version of the profile by translating existing profiles of SQL database design. After that, we extended and improved the profile. We implemented the profile by using UML CASE system StarUML™. We present an example of using the new profile. In addition, we describe problems that occurred during the profile development.

  17. Development of database systems for safety of repositories for disposal of radioactive wastes

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Yeong Hun; Han, Jeong Sang; Shin, Hyeon Jun; Ham, Sang Won; Kim, Hye Seong [Yonsei Univ., Seoul (Korea, Republic of)

    1999-03-15

    In the study, GSIS os developed for the maximizing effectiveness of the database system. For this purpose, the spatial relation of data from various fields that are constructed in the database which was developed for the site selection and management of repository for radioactive waste disposal. By constructing the integration system that can link attribute and spatial data, it is possible to evaluate the safety of repository effectively and economically. The suitability of integrating database and GSIS is examined by constructing the database in the test district where the site characteristics are similar to that of repository for radioactive waste disposal.

  18. Reusing open data for learning database design through project development

    Directory of Open Access Journals (Sweden)

    Jose-Norberto MAZÓN

    2015-12-01

    Full Text Available This paper describes a novel methodology based on reusing open data for applying project-based learning in a Database Design subject of a university degree. This methodology is applied to the ARA (Alto Rendimiento Académico or High Academic Performance group taught in the degree in Computer Engineering at the University of Alicante (Spain during 2012/2013, 2013/2014, and 2014/2015. Openness philosophy implies that huge amount of data is available to students in tabular format, ready for reusing. In our teaching experience, students propose an original scenario where different open data can be reused to a specific goal. Then, it is proposed to design a database in order to manage this data in the envisioned scenario. Open data in the subject helps in instilling a creative and entrepreneur attitude in students, as well as encourages autonomous and lifelong learning. Surveys made to students at the end of each year shown that reusing open data within project-based learning methodologies makes more motivated students since they are using real data.

  19. Development of a Tsunami Scenario Database for Marmara Sea

    Science.gov (United States)

    Ozer Sozdinler, Ceren; Necmioglu, Ocal; Meral Ozel, Nurcan

    2016-04-01

    Due to the very short travel times in Marmara Sea, a Tsunami Early Warning System (TEWS) has to be strongly coupled with the earthquake early warning system and should be supported with a pre-computed tsunami scenario database to be queried in near real-time based on the initial earthquake parameters. To address this problem, 30 different composite earthquake scenarios with maximum credible Mw values based on 32 fault segments have been identified to produce a detailed scenario database for all possible earthquakes in the Marmara Sea with a tsunamigenic potential. The bathy/topo data of Marmara Sea was prepared using GEBCO and ASTER data, bathymetric measurements along Bosphorus, Istanbul and Dardanelle, Canakkale and the coastline digitized from satellite images. The coarser domain in 90m-grid size was divided into 11 sub-regions having 30m-grid size in order to increase the data resolution and precision of the calculation results. The analyses were performed in nested domains with numerical model NAMIDANCE using non-linear shallow water equations. In order to cover all the residential areas, industrial facilities and touristic locations, more than 1000 numerical gauge points were selected along the coasts of Marmara Sea, which are located at water depth of 5 to 10m in finer domain. The distributions of tsunami hydrodynamic parameters were investigated together with the change of water surface elevations, current velocities, momentum fluxes and other important parameters at the gauge points. This work is funded by the project MARsite - New Directions in Seismic Hazard assessment through Focused Earth Observation in the Marmara Supersite (FP7-ENV.2012 6.4-2, Grant 308417 - see NH2.3/GMPV7.4/SM7.7) and supported by SATREPS-MarDim Project (Earthquake and Tsunami Disaster Mitigation in the Marmara Region and Disaster Education in Turkey) and JICA (Japan International Cooperation Agency). The authors would like to acknowledge Ms. Basak Firat for her assistance in

  20. Development of a combined database for meta-epidemiological research

    DEFF Research Database (Denmark)

    Savović, Jelena; Harris, Ross J; Wood, Lesley

    2010-01-01

    Collections of meta-analyses assembled in meta-epidemiological studies are used to study associations of trial characteristics with intervention effect estimates. However, methods and findings are not consistent across studies. To combine data from 10 meta-epidemiological studies into a single da...... database will be used to examine the combined evidence on sources of bias in randomized controlled trials. The strategy used to remove overlap between meta-analyses may be of use for future empirical research. Copyright © 2010 John Wiley & Sons, Ltd.......Collections of meta-analyses assembled in meta-epidemiological studies are used to study associations of trial characteristics with intervention effect estimates. However, methods and findings are not consistent across studies. To combine data from 10 meta-epidemiological studies into a single...

  1. Development and application of animation technique by using PIV database

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Y.H. [Korea Maritime University, Pusan (Korea); Choi, J.W. [IIT, Pusan (Korea); Seo, M.S.; Ahn, K.H.; Kim, M.Y. [Graduate School, Korea Maritime University, Pusan (Korea)

    1998-11-01

    Animation technique from the PIV database is particularly emphasized to give macroscopic and quantitative description of complex flow fields. As an example, a Karman vortex street(Re=2x10{sup 4}) from the two-dimensional cylinder immersed in a circular water tank is visualized and processed by PIV. Cross correlation algorithm to estimate the peak coefficients is adopted for the identification and its performance is compared to that of the FFT routine. All animation jobs are implemented completely on single personal computer. Compressed digital images are obtained by Motion-JPEG board and various AVI files are finally obtained through graphic processes. As results, continuous pictures of the spatial distribution of the instant vectors, turbulent intensity, turbulent kinetic energy, kinetic energy, vorticity and three Reynolds stress components are animated dynamically on PC monitor. And streak lines, trajectories and streamlines are also displayed in real-time sense. (author). 10 refs., 18 figs.

  2. Prioritization of candidate genes in "QTL-hotspot" region for drought tolerance in chickpea (Cicer arietinum L.).

    Science.gov (United States)

    Kale, Sandip M; Jaganathan, Deepa; Ruperao, Pradeep; Chen, Charles; Punna, Ramu; Kudapa, Himabindu; Thudi, Mahendar; Roorkiwal, Manish; Katta, Mohan A V S K; Doddamani, Dadakhalandar; Garg, Vanika; Kishor, P B Kavi; Gaur, Pooran M; Nguyen, Henry T; Batley, Jacqueline; Edwards, David; Sutton, Tim; Varshney, Rajeev K

    2015-10-19

    A combination of two approaches, namely QTL analysis and gene enrichment analysis were used to identify candidate genes in the "QTL-hotspot" region for drought tolerance present on the Ca4 pseudomolecule in chickpea. In the first approach, a high-density bin map was developed using 53,223 single nucleotide polymorphisms (SNPs) identified in the recombinant inbred line (RIL) population of ICC 4958 (drought tolerant) and ICC 1882 (drought sensitive) cross. QTL analysis using recombination bins as markers along with the phenotyping data for 17 drought tolerance related traits obtained over 1-5 seasons and 1-5 locations split the "QTL-hotspot" region into two subregions namely "QTL-hotspot_a" (15 genes) and "QTL-hotspot_b" (11 genes). In the second approach, gene enrichment analysis using significant marker trait associations based on SNPs from the Ca4 pseudomolecule with the above mentioned phenotyping data, and the candidate genes from the refined "QTL-hotspot" region showed enrichment for 23 genes. Twelve genes were found common in both approaches. Functional validation using quantitative real-time PCR (qRT-PCR) indicated four promising candidate genes having functional implications on the effect of "QTL-hotspot" for drought tolerance in chickpea.

  3. Developing a Geological Management Information System: National Important Mining Zone Database

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    Geo-data is a foundation for the prediction and assessment of ore resources, so managing and making full use of those data, including geography database, geology database, mineral deposits database, aeromagnetics database, gravity database, geochemistry database and remote sensing database, is very significant. We developed national important mining zone database (NIMZDB) to manage 14 national important mining zone databases to support a new round prediction of ore deposit. We found that attention should be paid to the following issues: ① data accuracy: integrity, logic consistency, attribute,spatial and time accuracy; ② management of both attribute and spatial data in the same system; ③transforming data between MapGIS and ArcGIS; ④ data sharing and security; ⑤ data searches that can query both attribute and spatial data. Accuracy of input data is guaranteed and the search, analysis and translation of data between MapGIS and ArcGIS has been made convenient via the development of a checking data module and a managing data module based on MapGIS and ArcGIS. Using ArcSDE, we based data sharing on a client/server system, and attribute and spatial data are also managed in the same system.

  4. WormQTL--public archive and analysis web portal for natural variation data in Caenorhabditis spp.

    Science.gov (United States)

    Snoek, L Basten; Van der Velde, K Joeri; Arends, Danny; Li, Yang; Beyer, Antje; Elvin, Mark; Fisher, Jasmin; Hajnal, Alex; Hengartner, Michael O; Poulin, Gino B; Rodriguez, Miriam; Schmid, Tobias; Schrimpf, Sabine; Xue, Feng; Jansen, Ritsert C; Kammenga, Jan E; Swertz, Morris A

    2013-01-01

    Here, we present WormQTL (http://www.wormqtl.org), an easily accessible database enabling search, comparative analysis and meta-analysis of all data on variation in Caenorhabditis spp. Over the past decade, Caenorhabditis elegans has become instrumental for molecular quantitative genetics and the systems biology of natural variation. These efforts have resulted in a valuable amount of phenotypic, high-throughput molecular and genotypic data across different developmental worm stages and environments in hundreds of C. elegans strains. WormQTL provides a workbench of analysis tools for genotype-phenotype linkage and association mapping based on but not limited to R/qtl (http://www.rqtl.org). All data can be uploaded and downloaded using simple delimited text or Excel formats and are accessible via a public web user interface for biologists and R statistic and web service interfaces for bioinformaticians, based on open source MOLGENIS and xQTL workbench software. WormQTL welcomes data submissions from other worm researchers.

  5. Front-End and Back-End Database Design and Development: Scholar's Academy Case Study

    Science.gov (United States)

    Parks, Rachida F.; Hall, Chelsea A.

    2016-01-01

    This case study consists of a real database project for a charter school--Scholar's Academy--and provides background information on the school and its cafeteria processing system. Also included are functional requirements and some illustrative data. Students are tasked with the design and development of a database for the purpose of improving the…

  6. Development of E-Mart Based on Object-Oriented Databases (OODB)

    Institute of Scientific and Technical Information of China (English)

    SUN Li; WANG Li; LIU Hao-shuang

    2002-01-01

    Focusing on the development of electronic-mart (e-mart)based on object-oriented databases (OODB), the concepts of integrated electronic-commerce (ecommerce) environment and e-mart are introduced, and the basic characteristics of OODB Jasmine are described.In addition, the database mode and hierarchy of e-mart are discussed in derail.

  7. Development of a road materials database: Interim Report: 1st draft

    CSIR Research Space (South Africa)

    Jones, DJ

    2003-03-01

    Full Text Available The data required for a road materials database has been identified and a basic structure formulated. A set of Excel workbooks and associated worksheets has been developed as a foundation for the database and as an interim means of gathering test...

  8. Mapping Quantitative Trait Loci (QTL) for Resistance to Late Blight in Tomato.

    Science.gov (United States)

    Panthee, Dilip R; Piotrowski, Ann; Ibrahem, Ragy

    2017-07-22

    Late blight caused by Phytophthora infestans (Montagne, Bary) is a devastating disease of tomato worldwide. There are three known major genes, Ph-1, Ph-2, and Ph-3, conferring resistance to late blight. In addition to these three genes, it is also believed that there are additional factors or quantitative trait loci (QTL) conferring resistance to late blight. Precise molecular mapping of all those major genes and potential QTL is important in the development of suitable molecular markers and hence, marker-assisted selection (MAS). The objective of the present study was to map the genes and QTL associated with late blight resistance in a tomato population derived from intra-specific crosses. To achieve this objective, a population, derived from the crossings of NC 1CELBR × Fla. 7775, consisting of 250 individuals at F2 and F2-derived families, were evaluated in replicated trials. These were conducted at Mountain Horticultural Crops Reseach & Extension Center (MHCREC) at Mills River, NC, and Mountain Research Staion (MRS) at Waynesville, NC in 2011, 2014, and 2015. There were two major QTL associated with late blight resistance located on chromosomes 9 and 10 with likelihood of odd (LOD) scores of more than 42 and 6, explaining 67% and 14% of the total phenotypic variation, respectively. The major QTLs are probably caused by the Ph-2 and Ph-3 genes. Furthermore, there was a minor QTL on chromosomes 12, which has not been reported before. This minor QTL may be novel and may be worth investigating further. Source of resistance to Ph-2, Ph-3, and this minor QTL traces back to line L3707, or Richter's Wild Tomato. The combination of major genes and minor QTL may provide a durable resistance to late blight in tomato.

  9. Mapping Quantitative Trait Loci (QTL for Resistance to Late Blight in Tomato

    Directory of Open Access Journals (Sweden)

    Dilip R. Panthee

    2017-07-01

    Full Text Available Late blight caused by Phytophthora infestans (Montagne, Bary is a devastating disease of tomato worldwide. There are three known major genes, Ph-1, Ph-2, and Ph-3, conferring resistance to late blight. In addition to these three genes, it is also believed that there are additional factors or quantitative trait loci (QTL conferring resistance to late blight. Precise molecular mapping of all those major genes and potential QTL is important in the development of suitable molecular markers and hence, marker-assisted selection (MAS. The objective of the present study was to map the genes and QTL associated with late blight resistance in a tomato population derived from intra-specific crosses. To achieve this objective, a population, derived from the crossings of NC 1CELBR × Fla. 7775, consisting of 250 individuals at F2 and F2-derived families, were evaluated in replicated trials. These were conducted at Mountain Horticultural Crops Reseach & Extension Center (MHCREC at Mills River, NC, and Mountain Research Staion (MRS at Waynesville, NC in 2011, 2014, and 2015. There were two major QTL associated with late blight resistance located on chromosomes 9 and 10 with likelihood of odd (LOD scores of more than 42 and 6, explaining 67% and 14% of the total phenotypic variation, respectively. The major QTLs are probably caused by the Ph-2 and Ph-3 genes. Furthermore, there was a minor QTL on chromosomes 12, which has not been reported before. This minor QTL may be novel and may be worth investigating further. Source of resistance to Ph-2, Ph-3, and this minor QTL traces back to line L3707, or Richter’s Wild Tomato. The combination of major genes and minor QTL may provide a durable resistance to late blight in tomato.

  10. Comparative QTL mapping of resistance to sugarcane mosaic virus in maize based on bioinformatics

    Institute of Scientific and Technical Information of China (English)

    Xiangling L(U); Xinhai LI; Chuanxiao XIE; Zhuanfang HAO; Hailian JI; Liyu SHI; Shihuang ZHANG

    2008-01-01

    The development of genomics and bioinfor-matics offers new tools for comparative gene mapping. In this paper, an integrated QTL map for sugarcane mosaic virus (SCMV) resistance in maize was constructed by compiling a total of 81 QTL loci available, using the Genetic Map IBM2 2005 Neighbors as reference. These 81 QTL loci were scattered on 7 chromosomes of maize, and most of them were clustered on chromosomes 3 and 6. By using the method of meta-analysis, we identified one "consensus QTL" on chromosome 3 covering a genetic distance of 6.44 cM, and two on chromosome 6 covering genetic distances of 16 cM and 27.48 cM, respectively. Four positional candidate resistant genes were identified within the "consensus QTL" on chromosome 3 via the strategy of comparative genomics. These results suggest that application of a combination of meta-analysis within a species with sequence homology comparison in a related model plant is an efficient approach to identify the major QTL and its candidate gene(s) for the target traits. The results of this study provide useful information for iden-tifying and cloning the major gene(s) conferring resistance to SCMV in maize.

  11. Development of spatial database on intact forest landscapes of India

    Science.gov (United States)

    Sudhakar Reddy, C.; Singh, Jyoti; Jha, C. S.; Diwakar, P. G.; Dadhwal, V. K.

    2017-01-01

    There is an increased interest in identifying the status of biodiversity in different spatial and temporal scales. The objective of the current research is to prepare a consistent spatial database of intact forest landscapes of India. The intact forest landscapes are located in the Himalayas, Andaman & Nicobar Islands, Western Ghats and Sunderbans. At national level 237 forest landscapes and 5.4% of the total natural forest remained as intact in India. Current intact forest landscapes of India consists of blocks larger than 10 km2 covering an area of 34,061 km2. Of the total area under intact forest landscapes, Eastern Himalayas represent 76.7% of the area, followed by Western Himalayas (8.8%), Andaman & Nicobar Islands (6.2%) and Western Ghats (5.7%). The largest intact forest landscape block occupies an area of 3342.9 km2 (9.8%) is found in western Arunachal Pradesh. Temperate forest zone represents the highest intactness (56.6%), followed by subtropical zone (19.2%), tropical zone (18.6%) and alpine zone (5.6%). Himalayan moist temperate forests represent the highest area (39.1%) of intact forest landscapes followed by subtropical broad-leaved hill forests, wet evergreen forests, and montane wet temperate forests. It is estimated that 4.4% of the area of intact forest landscapes fall inside the existing 47 protected areas. The results of the analysis best suited as input for the process of identification of new protected areas. The study recommends fine-scale mapping of biodiversity within the intact forest landscapes and to prepare efficient conservation plans.

  12. QTL Information Table: 521 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qVB-1 Morphological trait Culm/leaf no. of vascular bundles in peduncle RFLP C)Inte...2002). Molecular mapping of quantitative trait loci (QTL) for characters of vascular bundles in peduncle rel

  13. QTL Information Table: 997 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qPTD-2 Morphological trait Panicle/flower peduncle top diameter RFLP C)Interval DHL...02). QTL analysis of rice peduncle vascular bundle system and panicle traits. Acta Bot Sinica 44, 301-306 ...

  14. QTL Information Table: 841 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available gs. TAG Theoretical and Applied Genetics 102, 793-800. http://dx.doi.org/10.1007/s001220000467 ... ... function map: QTL analysis and comparison between QTLs and expressed sequence ta

  15. QTL Information Table: 692 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available , N., Takagi, K., Ichikawa, N., Maruoka, M., and Sano, Y. (2007). A QTL Cluster for Plant Architecture and Its Ecological Significance in Asian Wild Rice. Breeding Science 57, 7-16. ...

  16. QTL Information Table: 474 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 002). QTL mapping and introgression of yield-related traits from Oryza glumaepatula to cultivated rice ( Oryza sativa) using microsatellite markers. Theor Appl Genet 104, 1192-1203. ...

  17. QTL Information Table: 731 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 007). A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  18. QTL Information Table: 733 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 007). A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  19. QTL Information Table: 735 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available (2007). A Large-Effect QTL for Grain Yield under Reproductive-Stage Drought Stress in Upland Rice. Crop Sci. 47, 507-516. http://crop.scijournals.org/cgi/content/abstract/47/2/507 ...

  20. QTL Information Table: 842 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available parison between QTLs and expressed sequence tags. TAG Th... T., and Ohsugi, R. (2001). Toward the mapping of physiological and agronomic characters on a rice function map: QTL analysis and com

  1. QTL Information Table: 843 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available parison between QTLs and expressed sequence tags. TAG Th... T., and Ohsugi, R. (2001). Toward the mapping of physiological and agronomic characters on a rice function map: QTL analysis and com

  2. QTL Information Table: 845 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available map: QTL analysis and comparison between QTLs and expressed sequence tags. TAG T..., T., and Ohsugi, R. (2001). Toward the mapping of physiological and agronomic characters on a rice function

  3. QTL Information Table: 840 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available parison between QTLs and expressed sequence tags. TAG Th... T., and Ohsugi, R. (2001). Toward the mapping of physiological and agronomic characters on a rice function map: QTL analysis and com

  4. QTL Information Table: 837 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available map: QTL analysis and comparison between QTLs and expressed sequence tags. TAG T..., T., and Ohsugi, R. (2001). Toward the mapping of physiological and agronomic characters on a rice function

  5. QTL Information Table: 453 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Physiological trait Source activity spikelet fertility RFLP C)Interval RIL Zhenshan...ison of QTL detection for yield traits using F2 and recombinant inbred lines in rice. Rice Genetics Newsletter 17, 49-51. ...

  6. The development of an Ada programming support environment database: SEAD (Software Engineering and Ada Database), user's manual

    Science.gov (United States)

    Liaw, Morris; Evesson, Donna

    1988-01-01

    This is a manual for users of the Software Engineering and Ada Database (SEAD). SEAD was developed to provide an information resource to NASA and NASA contractors with respect to Ada-based resources and activities that are available or underway either in NASA or elsewhere in the worldwide Ada community. The sharing of such information will reduce the duplication of effort while improving quality in the development of future software systems. The manual describes the organization of the data in SEAD, the user interface from logging in to logging out, and concludes with a ten chapter tutorial on how to use the information in SEAD. Two appendices provide quick reference for logging into SEAD and using the keyboard of an IBM 3270 or VT100 computer terminal.

  7. Development of database and mathematical models for predicting engine performance parameters using biodiesel

    National Research Council Canada - National Science Library

    P K Pranav; Thaneswer Patel; K Padmeshore Singh

    2017-01-01

    ... properties, engine performance parameters and emission characteristics. The comparisons of fuel properties among the biodiesel, its blends and engine performance parameters are one of the most attractive features of the developed database...

  8. Quality standards for DNA sequence variation databases to improve clinical management under development in Australia

    Directory of Open Access Journals (Sweden)

    B. Bennetts

    2014-09-01

    Full Text Available Despite the routine nature of comparing sequence variations identified during clinical testing to database records, few databases meet quality requirements for clinical diagnostics. To address this issue, The Royal College of Pathologists of Australasia (RCPA in collaboration with the Human Genetics Society of Australasia (HGSA, and the Human Variome Project (HVP is developing standards for DNA sequence variation databases intended for use in the Australian clinical environment. The outputs of this project will be promoted to other health systems and accreditation bodies by the Human Variome Project to support the development of similar frameworks in other jurisdictions.

  9. QTL Mapping of Low-Temperature Germination Ability in the Maize IBM Syn4 RIL Population.

    Directory of Open Access Journals (Sweden)

    Shuaidong Hu

    Full Text Available Low temperature is the primary factor to affect maize sowing in early spring. It is, therefore, vital for maize breeding programs to improve tolerance to low temperatures at seed germination stage. However, little is known about maize QTL involved in low-temperature germination ability. 243 lines of the intermated B73×Mo17 (IBM Syn4 recombinant inbred line (RIL population was used for QTL analysis of low-temperature germination ability. There were significant differences in germination-related traits under both conditions of low temperature (12°C/16 h, 18°C/8 h and optimum temperature (28°C/24 h between the parental lines. Only three QTL were identified for controlling optimum-temperature germination rate. Six QTL controlling low-temperature germination rate were detected on chromosome 4, 5, 6, 7 and 9, and contribution rate of single QTL explained between 3.39%~11.29%. In addition, six QTL controlling low-temperature primary root length were detected in chromosome 4, 5, 6, and 9, and the contribution rate of single QTL explained between 3.96%~8.41%. Four pairs of QTL were located at the same chromosome position and together controlled germination rate and primary root length under low temperature condition. The nearest markers apart from the corresponding QTL (only 0.01 cM were umc1303 (265.1 cM on chromosome 4, umc1 (246.4 cM on chromosome 5, umc62 (459.1 cM on chromosome 6, bnl14.28a (477.4 cM on chromosome 9, respectively. A total of 3155 candidate genes were extracted from nine separate intervals based on the Maize Genetics and Genomics Database (http://www.maizegdb.org. Five candidate genes were selected for analysis as candidates putatively affecting seed germination and seedling growth at low temperature. The results provided a basis for further fine mapping, molecular marker assisted breeding and functional study of cold-tolerance at the stage of seed germination in maize.

  10. QTL Mapping of Low-Temperature Germination Ability in the Maize IBM Syn4 RIL Population.

    Science.gov (United States)

    Hu, Shuaidong; Lübberstedt, Thomas; Zhao, Guangwu; Lee, Michael

    2016-01-01

    Low temperature is the primary factor to affect maize sowing in early spring. It is, therefore, vital for maize breeding programs to improve tolerance to low temperatures at seed germination stage. However, little is known about maize QTL involved in low-temperature germination ability. 243 lines of the intermated B73×Mo17 (IBM) Syn4 recombinant inbred line (RIL) population was used for QTL analysis of low-temperature germination ability. There were significant differences in germination-related traits under both conditions of low temperature (12°C/16 h, 18°C/8 h) and optimum temperature (28°C/24 h) between the parental lines. Only three QTL were identified for controlling optimum-temperature germination rate. Six QTL controlling low-temperature germination rate were detected on chromosome 4, 5, 6, 7 and 9, and contribution rate of single QTL explained between 3.39%~11.29%. In addition, six QTL controlling low-temperature primary root length were detected in chromosome 4, 5, 6, and 9, and the contribution rate of single QTL explained between 3.96%~8.41%. Four pairs of QTL were located at the same chromosome position and together controlled germination rate and primary root length under low temperature condition. The nearest markers apart from the corresponding QTL (only 0.01 cM) were umc1303 (265.1 cM) on chromosome 4, umc1 (246.4 cM) on chromosome 5, umc62 (459.1 cM) on chromosome 6, bnl14.28a (477.4 cM) on chromosome 9, respectively. A total of 3155 candidate genes were extracted from nine separate intervals based on the Maize Genetics and Genomics Database (http://www.maizegdb.org). Five candidate genes were selected for analysis as candidates putatively affecting seed germination and seedling growth at low temperature. The results provided a basis for further fine mapping, molecular marker assisted breeding and functional study of cold-tolerance at the stage of seed germination in maize.

  11. QTL analysis for some quantitative traits in bread wheat

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Quantitative trait loci (QTL) analysis was conducted in bread wheat for 14 important traits utilizing data from four different mapping populations involving different approaches of QTL analysis. Analysis for grain protein content (GPC) suggested that the major part of genetic variation for this trait is due to environmental interactions. In contrast, pre-harvest sprouting tolerance (PHST) was controlled mainly by main effect QTL (M-QTL) with very little genetic variation due to environmental interactions; a major QTL for PHST was detected on chromosome arm 3AL. For grain weight, one QTL each was detected on chromosome arms 1AS, 2BS and 7AS. QTL for 4 growth related traits taken together detected by different methods ranged from 37 to 40; nine QTL that were detected by single-locus as well as two-locus analyses were all M-QTL. Similarly, single-locus and two-locus QTL analyses for seven yield and yield contributing traits in two populations respectively allowed detection of 25 and 50 QTL by composite interval mapping (CIM), 16 and 25 QTL by multiple-trait composite interval mapping (MCIM) and 38 and 37 QTL by two-locus analyses. These studies should prove useful in QTL cloning and wheat improvement through marker aided selection.

  12. DEVELOPMENT OF AN APPLICATION WITH THE PURPOSE OF MAINTAINING A DATABASE

    Directory of Open Access Journals (Sweden)

    Wilson Fadlo Curi

    2011-04-01

    Full Text Available Nowadays, sustainable development is the great paradigm of human development, because of that new methodologies for the planning and management of systems, specially the ones for hydric resources, are being developed, this forms of evaluation are no longer restricted to mere economic evaluation, but are also submitted to social and environmental sustainability evaluation. The use of databases is essential for the manipulation of the most diverse kinds of data and information, which can be utilized for storing historical data and other information necessary for future use. Therefore, this article focuses mainly on presenting the application developed to manipulate tables in a database, to allow and facilitate the inclusion, elimination, renaming of tables and table fields in order to substitute some SQL commands available in programs of the various available databases. Thus, this application will add value to the decision support system that is being developed by GOTA (Group of Water Total Optimization which in many cases needs to make changes in its database for obtaining greater flexibility and data manipulation, such as register of reservoirs, irrigated perimeters, meteorological stations, gauged stations, institutions, etc. This application allows an intelligent and fast manipulation of tables in a database, which the present version runs on the PostgreSQL database and was developed in Java platform, which is a platform that permits its installation in several types of operational systems and many kinds of computers.

  13. Design of primary ground support during roadway development using empirical databases

    Institute of Scientific and Technical Information of China (English)

    Ry Stone⇑

    2016-01-01

    There have been many design practices utilised within the coal mining industry to arrive at the minimum densities of primary ground support required during roadway development. This paper demonstrates the practical use of empirical databases, and focuses on the main drivers for ground support as demonstrated in conceptual models. Golder Associates’ empirical databases used for ground support include a primary roof support database and a primary rib support database. Both are based on successful ground support designs installed in mines in Australia, the US, the UK, South Africa, New Zealand, and Europe. The term‘successful”refers to those designs that were used on a repeated basis for the purpose of roadway devel-opment. The primary roof support database indicates that the major factors influencing successful roof support designs are roof competency, expressed as the coal mine roof rating (CMRR), and in situ stress. In regard to the primary rib support database, it is evident from the current database that the primary factors affecting the capacity of rib support required for a successful design are roadway height and depth of cover. These databases have been used to help determine the minimum primary ground support designs required at many mine sites in Australasia, Europe, and the US. This paper will demonstrate the effectiveness and practicality of these databases at two selected mines in Australia and the US. In order to improve the primary rib support database, this paper will also propose a new rib deformation rating based on the addition of site specific coal strength data for the Australian mines. The proposed rat-ing attempts to capture the main variables that define the behaviour of a buckling column.

  14. Development operators on 4D moving object databases

    Institute of Scientific and Technical Information of China (English)

    JUN Sung-woo; LEE Yang-koo; KIM Sang-ho; CHI Jeong-hee; RYU Keun-ho

    2004-01-01

    In this paper we propose four-dimensional (4D) operators, which can be used to deal with sequential changes of topological relationships between 4D moving objects and we call them 4D development operators. In contrast to the existing operators, we can apply the operators to real applications on 4D moving objects. We also propose a new approach to define them. The approach is based on a dimension-separated method, which considers x-y coordinates and z coordinates separately. In order to show the applicability of our operators, we show the algorithms for the proposed operators and development graph between 4D moving objects.

  15. Data-Base Software For Tracking Technological Developments

    Science.gov (United States)

    Aliberti, James A.; Wright, Simon; Monteith, Steve K.

    1996-01-01

    Technology Tracking System (TechTracS) computer program developed for use in storing and retrieving information on technology and related patent information developed under auspices of NASA Headquarters and NASA's field centers. Contents of data base include multiple scanned still images and quick-time movies as well as text. TechTracS includes word-processing, report-editing, chart-and-graph-editing, and search-editing subprograms. Extensive keyword searching capabilities enable rapid location of technologies, innovators, and companies. System performs routine functions automatically and serves multiple users.

  16. Fine mapping and replication of QTL in outbred chicken advanced intercross lines

    Directory of Open Access Journals (Sweden)

    Andersson Leif

    2011-01-01

    Full Text Available Abstract Background Linkage mapping is used to identify genomic regions affecting the expression of complex traits. However, when experimental crosses such as F2 populations or backcrosses are used to map regions containing a Quantitative Trait Locus (QTL, the size of the regions identified remains quite large, i.e. 10 or more Mb. Thus, other experimental strategies are needed to refine the QTL locations. Advanced Intercross Lines (AIL are produced by repeated intercrossing of F2 animals and successive generations, which decrease linkage disequilibrium in a controlled manner. Although this approach is seen as promising, both to replicate QTL analyses and fine-map QTL, only a few AIL datasets, all originating from inbred founders, have been reported in the literature. Methods We have produced a nine-generation AIL pedigree (n = 1529 from two outbred chicken lines divergently selected for body weight at eight weeks of age. All animals were weighed at eight weeks of age and genotyped for SNP located in nine genomic regions where significant or suggestive QTL had previously been detected in the F2 population. In parallel, we have developed a novel strategy to analyse the data that uses both genotype and pedigree information of all AIL individuals to replicate the detection of and fine-map QTL affecting juvenile body weight. Results Five of the nine QTL detected with the original F2 population were confirmed and fine-mapped with the AIL, while for the remaining four, only suggestive evidence of their existence was obtained. All original QTL were confirmed as a single locus, except for one, which split into two linked QTL. Conclusions Our results indicate that many of the QTL, which are genome-wide significant or suggestive in the analyses of large intercross populations, are true effects that can be replicated and fine-mapped using AIL. Key factors for success are the use of large populations and powerful statistical tools. Moreover, we believe that

  17. Thermodynamic database development-modeling and phase diagram calculations in oxide systems

    Institute of Scientific and Technical Information of China (English)

    Arthur D. Pelton

    2006-01-01

    The databases of the FactSage thermodynamic computer system have been under development for 30 years. These databases contain critically evaluated and optimized data for thousands of compounds and hundreds of multicomponent solutions of solid and liquid metals, oxides, salts, sulfides, etc. The databases are automatically accessed by user-friendly software that calculates complex multiphase equilibria in large multicomponent systems for a wide variety of possible input/output constraints. The databases for solutions have been developed by critical evaluation/optimization of all available phase equilibrium and thermodynamic data. The databases contain parameters of models specifically developed for different types of solutions involving sublattices, ordering, etc. Through the optimization process, model parameters are found which reproduce all thermodynamic and phase equilibrium data within experimental error limits and permit extrapolation into regions of temperature and composition where data are unavailable. The present article focuses on the databases for solid and liquid oxide phases involving 25 elements. A short review of the available databases is presented along with the models used for the molten slag and the solid solutions such as spinel, pyroxene, olivine, monoxide, corundum, etc. The critical evaluation/optimization procedure is outlined using examples from the A12O3-SiO2-CaO-FeO-Fe2O3 system. Sample calculations are presented in which the oxide databases are used in conjunction with the FactSage databases for metallic and other phases. In particular, the use of the FactSage module for the calculation of multicomponent phase diagrams is illustrated.

  18. Development and testing of a database of NIH research funding of AAPM members: A report from the AAPM Working Group for the Development of a Research Database (WGDRD).

    Science.gov (United States)

    Whelan, Brendan; Moros, Eduardo G; Fahrig, Rebecca; Deye, James; Yi, Thomas; Woodward, Michael; Keall, Paul; Siewerdsen, Jeff H

    2017-04-01

    To produce and maintain a database of National Institutes of Health (NIH) funding of the American Association of Physicists in Medicine (AAPM) members, to perform a top-level analysis of these data, and to make these data (hereafter referred to as the AAPM research database) available for the use of the AAPM and its members. NIH-funded research dating back to 1985 is available for public download through the NIH exporter website, and AAPM membership information dating back to 2002 was supplied by the AAPM. To link these two sources of data, a data mining algorithm was developed in Matlab. The false-positive rate was manually estimated based on a random sample of 100 records, and the false-negative rate was assessed by comparing against 99 member-supplied PI_ID numbers. The AAPM research database was queried to produce an analysis of trends and demographics in research funding dating from 2002 to 2015. A total of 566 PI_ID numbers were matched to AAPM members. False-positive and -negative rates were respectively 4% (95% CI: 1-10%, N = 100) and 10% (95% CI: 5-18%, N = 99). Based on analysis of the AAPM research database, in 2015 the NIH awarded $USD 110M to members of the AAPM. The four NIH institutes which historically awarded the most funding to AAPM members were the National Cancer Institute, National Institute of Biomedical Imaging and Bioengineering, National Heart Lung and Blood Institute, and National Institute of Neurological Disorders and Stroke. In 2015, over 85% of the total NIH research funding awarded to AAPM members was via these institutes, representing 1.1% of their combined budget. In the same year, 2.0% of AAPM members received NIH funding for a total of $116M, which is lower than the historic mean of $120M (in 2015 USD). A database of NIH-funded research awarded to AAPM members has been developed and tested using a data mining approach, and a top-level analysis of funding trends has been performed. Current funding of AAPM members is lower than

  19. Data recycling: using existing databases to increase research capacity in speech-language development and disorders.

    Science.gov (United States)

    Justice, Laura M; Breit-Smith, Allison; Rogers, Margaret

    2010-01-01

    This clinical forum was organized to provide a means for informing the research and clinical communities of one mechanism through which research capacity might be enhanced within the field of speech-language pathology. Specifically, forum authors describe the process of conducting secondary analyses of extant databases to answer questions of relevance to speech and language development and disorders. This prologue defines the concept of secondary analysis of databases and provides an overview of each of the articles that make up the forum. Researchers invested in addressing basic and applied problems of relevance to speech and language services in schools can make use of a variety of extant databases to increase research capacity.

  20. Development of materials database system for cae system of heat treatment based on data mining technology

    Institute of Scientific and Technical Information of China (English)

    GU Qiang; ZHONG Rui; JU Dong-ying

    2006-01-01

    Computer simulation for materials processing needs a huge database containing a great deal of various physical properties of materials. In order to employ the accumulated large data on materials heat treatment in the past years,it is significant to develop an intelligent database system. Based on the data mining technology for data analysis,an intelligent database web tool system of computer simulation for heat treatment process named as IndBASEweb-HT was built up. The architecture and the arithmetic of this system as well as its application were introduced.

  1. Development of a natural products database from the biodiversity of Brazil.

    Science.gov (United States)

    Valli, Marilia; dos Santos, Ricardo N; Figueira, Leandro D; Nakajima, Cíntia H; Castro-Gamboa, Ian; Andricopulo, Adriano D; Bolzani, Vanderlan S

    2013-03-22

    We describe herein the design and development of an innovative tool called the NuBBE database (NuBBEDB), a new Web-based database, which incorporates several classes of secondary metabolites and derivatives from the biodiversity of Brazil. This natural product database incorporates botanical, chemical, pharmacological, and toxicological compound information. The NuBBEDB provides specialized information to the worldwide scientific community and can serve as a useful tool for studies on the multidisciplinary interfaces related to chemistry and biology, including virtual screening, dereplication, metabolomics, and medicinal chemistry. The NuBBEDB site is at http://nubbe.iq.unesp.br/nubbeDB.html .

  2. Accelerating materials discovery through the development of polymer databases

    Science.gov (United States)

    Audus, Debra

    In our line of business we create chemical solutions for a wide range of applications, such as home and personal care, printing and packaging, automotive and structural coatings, and structural plastics and foams applications. In this environment, stable and highly automated workflows suitable to handle complex systems are a must. By satisfying these prerequisites, efficiency for the development of new materials can be significantly improved by combining modeling and experimental approaches. This is in fact in line with recent Materials Genome Initiative efforts sponsored by the US administration. From our experience, we know, that valuable contributions to product development are possible today by combining existing modeling techniques in an intelligent fashion, provided modeling and experiment work closely together. In my presentation I intend to review approaches to build and parameterize soft matter systems. As an example of our standard workflow, I will show a few applications, which include the design of a stabilizer molecule for dispersing polymer particles and the simulation of polystyrene dispersions.

  3. The development of technical database of advanced spent fuel management process

    Energy Technology Data Exchange (ETDEWEB)

    Ro, Seung Gy; Byeon, Kee Hoh; Song, Dae Yong; Park, Seong Won; Shin, Young Jun

    1999-03-01

    The purpose of this study is to develop the technical database system to provide useful information to researchers who study on the back end nuclear fuel cycle. Technical database of advanced spent fuel management process was developed for a prototype system in 1997. In 1998, this database system is improved into multi-user systems and appended special database which is composed of thermochemical formation data and reaction data. In this report, the detailed specification of our system design is described and the operating methods are illustrated as a user's manual. Also, expanding current system, or interfacing between this system and other system, this report is very useful as a reference. (Author). 10 refs., 18 tabs., 46 fig.

  4. An empirical method for establishing positional confidence intervals tailored for composite interval mapping of QTL.

    Directory of Open Access Journals (Sweden)

    Andrew Crossett

    Full Text Available BACKGROUND: Improved genetic resolution and availability of sequenced genomes have made positional cloning of moderate-effect QTL realistic in several systems, emphasizing the need for precise and accurate derivation of positional confidence intervals (CIs for QTL. Support interval (SI methods based on the shape of the QTL likelihood curve have proven adequate for standard interval mapping, but have not been shown to be appropriate for use with composite interval mapping (CIM, which is one of the most commonly used QTL mapping methods. RESULTS: Based on a non-parametric confidence interval (NPCI method designed for use with the Haley-Knott regression method for mapping QTL, a CIM-specific method (CIM-NPCI was developed to appropriately account for the selection of background markers during analysis of bootstrap-resampled data sets. Coverage probabilities and interval widths resulting from use of the NPCI, SI, and CIM-NPCI methods were compared in a series of simulations analyzed via CIM, wherein four genetic effects were simulated in chromosomal regions with distinct marker densities while heritability was fixed at 0.6 for a population of 200 isolines. CIM-NPCIs consistently capture the simulated QTL across these conditions while slightly narrower SIs and NPCIs fail at unacceptably high rates, especially in genomic regions where marker density is high, which is increasingly common for real studies. The effects of a known CIM bias toward locating QTL peaks at markers were also investigated for each marker density case. Evaluation of sub-simulations that varied according to the positions of simulated effects relative to the nearest markers showed that the CIM-NPCI method overcomes this bias, offering an explanation for the improved coverage probabilities when marker densities are high. CONCLUSIONS: Extensive simulation studies herein demonstrate that the QTL confidence interval methods typically used to positionally evaluate CIM results can be

  5. QTL Mapping of Kernel Number-Related Traits and Validation of One Major QTL for Ear Length in Maize.

    Science.gov (United States)

    Huo, Dongao; Ning, Qiang; Shen, Xiaomeng; Liu, Lei; Zhang, Zuxin

    2016-01-01

    The kernel number is a grain yield component and an important maize breeding goal. Ear length, kernel number per row and ear row number are highly correlated with the kernel number per ear, which eventually determines the ear weight and grain yield. In this study, two sets of F2:3 families developed from two bi-parental crosses sharing one inbred line were used to identify quantitative trait loci (QTL) for four kernel number-related traits: ear length, kernel number per row, ear row number and ear weight. A total of 39 QTLs for the four traits were identified in the two populations. The phenotypic variance explained by a single QTL ranged from 0.4% to 29.5%. Additionally, 14 overlapping QTLs formed 5 QTL clusters on chromosomes 1, 4, 5, 7, and 10. Intriguingly, six QTLs for ear length and kernel number per row overlapped in a region on chromosome 1. This region was designated qEL1.10 and was validated as being simultaneously responsible for ear length, kernel number per row and ear weight in a near isogenic line-derived population, suggesting that qEL1.10 was a pleiotropic QTL with large effects. Furthermore, the performance of hybrids generated by crossing 6 elite inbred lines with two near isogenic lines at qEL1.10 showed the breeding value of qEL1.10 for the improvement of the kernel number and grain yield of maize hybrids. This study provides a basis for further fine mapping, molecular marker-aided breeding and functional studies of kernel number-related traits in maize.

  6. Development of a New Web Portal for the Database on Demand Service

    CERN Document Server

    Altinigne, Can Yilmaz

    2017-01-01

    The Database on Demand service allows members of CERN communities to provision and manage database instances of different flavours (MySQL, Oracle, PostgreSQL and InfluxDB). Users can create and edit these instances using the web interface of DB On Demand. This web front end is currently on Java technologies and the ZK web framework, for which is generally difficult to find experienced developers and which has gotten to lack behind more modern web stacks in capabilities and usability.

  7. Recent NASA Wake-Vortex Flight Tests, Flow-Physics Database and Wake-Development Analysis

    Science.gov (United States)

    Vicroy, Dan D.; Vijgen, Paul M.; Reimer, Heidi M.; Gallegos, Joey L.; Spalart, Philippe R.

    1998-01-01

    A series of flight tests over the ocean of a four engine turboprop airplane in the cruise configuration have provided a data set for improved understanding of wake vortex physics and atmospheric interaction. An integrated database has been compiled for wake characterization and validation of wake-vortex computational models. This paper describes the wake-vortex flight tests, the data processing, the database development and access, and results obtained from preliminary wake-characterization analysis using the data sets.

  8. Identification of Polymorphisms Associated with Drought Adaptation QTL in Brassica napus by Resequencing

    Directory of Open Access Journals (Sweden)

    Richard S. Fletcher

    2016-04-01

    Full Text Available Brassica napus is a globally important oilseed for which little is known about the genetics of drought adaptation. We previously mapped twelve quantitative trait loci (QTL underlying drought-related traits in a biparental mapping population created from a cross between winter and spring B. napus cultivars. Here we resequence the genomes of the mapping population parents to identify genetic diversity across the genome and within QTL regions. We sequenced each parental cultivar on the Illumina HiSeq platform to a minimum depth of 23 × and performed a reference based assembly in order to describe the molecular variation differentiating them at the scale of the genome, QTL and gene. Genome-wide patterns of variation were characterized by an overall higher single nucleotide polymorphism (SNP density in the A genome and a higher ratio of nonsynonymous to synonymous substitutions in the C genome. Nonsynonymous substitutions were used to categorize gene ontology terms differentiating the parent genomes along with a list of putative functional variants contained within each QTL. Marker assays were developed for several of the discovered polymorphisms within a pleiotropic QTL on chromosome A10. QTL analysis with the new, denser map showed the most associated marker to be that developed from an insertion/deletion polymorphism located in the candidate gene Bna.FLC.A10, and it was the only candidate within the QTL interval with observed polymorphism. Together, these results provide a glimpse of genome-wide variation differentiating annual and biennial B. napus ecotypes as well as a better understanding of the genetic basis of root and drought phenotypes.

  9. Infrastructure for Planetary Sciences: Universal planetary database development project

    Science.gov (United States)

    Kasaba, Yasumasa; Capria, M. T.; Crichton, D.; Zender, J.; Beebe, R.

    The International Planetary Data Alliance (IPDA), formally formed under COSPAR (Formal start: from the COSPAR 2008 at Montreal), is a joint international effort to enable global access and exchange of high quality planetary science data, and to establish archive stan-dards that make it easier to share the data across international boundaries. In 2008-2009, thanks to the many players from several agencies and institutions, we got fruitful results in 6 projects: (1) Inter-operable Planetary Data Access Protocol (PDAP) implementations [led by J. Salgado@ESA], (2) Small bodies interoperability [led by I. Shinohara@JAXA N. Hirata@U. Aizu], (3) PDAP assessment [led by Y. Yamamoto@JAXA], (4) Architecture and standards definition [led by D. Crichton@NASA], (5) Information model and data dictionary [led by S. Hughes@NASA], and (6) Venus Express Interoperability [led by N. Chanover@NMSU]. 'IPDA 2009-2010' is important, especially because the NASA/PDS system reformation is now reviewed as it develops for application at the international level. IPDA is the gate for the establishment of the future infrastructure. We are running 8 projects: (1) IPDA Assessment of PDS4 Data Standards [led by S. Hughes (NASA/JPL)], (2) IPDA Archive Guide [led by M.T. Capria (IASF/INAF) and D. Heather (ESA/PSA)], (3) IPDA Standards Identification [led by E. Rye (NASA/PDS) and G. Krishna (ISRO)], (4) Ancillary Data Standards [led by C. Acton (NASA/JPL)], (5) IPDA Registries Definition [led by D. Crichton (NASA/JPL)], (6) PDAP Specification [led by J. Salgado (ESA/PSA) and Y. Yamamoto (JAXA)], (7) In-teroperability Assessment [R. Beebe (NMSU) and D. Heather (ESA/PSA)], and (8) PDAP Geographic Information System (GIS) extension [N. Hirata (Univ. Aizu) and T. Hare (USGS: thare@usgs.gov)]. This paper presents our achievements and plans summarized in the IPDA 5th Steering Com-mittee meeting at DLR in July 2010. We are now just the gate for the establishment of the Infrastructure.

  10. The National Landslide Database and GIS for Great Britain: construction, development, data acquisition, application and communication

    Science.gov (United States)

    Pennington, Catherine; Dashwood, Claire; Freeborough, Katy

    2014-05-01

    The National Landslide Database has been developed by the British Geological Survey (BGS) and is the focus for national geohazard research for landslides in Great Britain. The history and structure of the geospatial database and associated Geographical Information System (GIS) are explained, along with the future developments of the database and its applications. The database is the most extensive source of information on landslides in Great Britain with over 16,500 records of landslide events, each documented as fully as possible. Data are gathered through a range of procedures, including: incorporation of other databases; automated trawling of current and historical scientific literature and media reports; new field- and desk-based mapping technologies with digital data capture, and crowd-sourcing information through social media and other online resources. This information is invaluable for the investigation, prevention and mitigation of areas of unstable ground in accordance with Government planning policy guidelines. The national landslide susceptibility map (GeoSure) and a national landslide domain map currently under development rely heavily on the information contained within the landslide database. Assessing susceptibility to landsliding requires knowledge of the distribution of failures and an understanding of causative factors and their spatial distribution, whilst understanding the frequency and types of landsliding present is integral to modelling how rainfall will influence the stability of a region. Communication of landslide data through the Natural Hazard Partnership (NHP) contributes to national hazard mitigation and disaster risk reduction with respect to weather and climate. Daily reports of landslide potential are published by BGS through the NHP and data collected for the National Landslide Database is used widely for the creation of these assessments. The National Landslide Database is freely available via an online GIS and is used by a

  11. Development of a computational database for probabilistic safety assessment of nuclear research reactors

    Energy Technology Data Exchange (ETDEWEB)

    Macedo, Vagner S.; Oliveira, Patricia S. Pagetti de; Andrade, Delvonei Alves de, E-mail: vagner.macedo@usp.br, E-mail: patricia@ipen.br, E-mail: delvonei@ipen.br [Instituto de Pesquisas Energeticas e Nucleares (IPEN/CNEN-SP), Sao Paulo, SP (Brazil)

    2015-07-01

    The objective of this work is to describe the database being developed at IPEN - CNEN / SP for application in the Probabilistic Safety Assessment of nuclear research reactors. The database can be accessed by means of a computational program installed in the corporate computer network, named IPEN Intranet, and this access will be allowed only to professionals previously registered. Data updating, editing and searching tasks will be controlled by a system administrator according to IPEN Intranet security rules. The logical model and the physical structure of the database can be represented by an Entity Relationship Model, which is based on the operational routines performed by IPEN - CNEN / SP users. The web application designed for the management of the database is named PSADB. It is being developed with MySQL database software and PHP programming language is being used. Data stored in this database are divided into modules that refer to technical specifications, operating history, maintenance history and failure events associated with the main components of the nuclear facilities. (author)

  12. Development of the severe accident risk information database management system SARD

    Energy Technology Data Exchange (ETDEWEB)

    Ahn, Kwang Il; Kim, Dong Ha

    2003-01-01

    The main purpose of this report is to introduce essential features and functions of a severe accident risk information management system, SARD (Severe Accident Risk Database Management System) version 1.0, which has been developed in Korea Atomic Energy Research Institute, and database management and data retrieval procedures through the system. The present database management system has powerful capabilities that can store automatically and manage systematically the plant-specific severe accident analysis results for core damage sequences leading to severe accidents, and search intelligently the related severe accident risk information. For that purpose, the present database system mainly takes into account the plant-specific severe accident sequences obtained from the Level 2 Probabilistic Safety Assessments (PSAs), base case analysis results for various severe accident sequences (such as code responses and summary for key-event timings), and related sensitivity analysis results for key input parameters/models employed in the severe accident codes. Accordingly, the present database system can be effectively applied in supporting the Level 2 PSA of similar plants, for fast prediction and intelligent retrieval of the required severe accident risk information for the specific plant whose information was previously stored in the database system, and development of plant-specific severe accident management strategies.

  13. Development of a data entry auditing protocol and quality assurance for a tissue bank database.

    Science.gov (United States)

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

    2012-03-01

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

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

    Science.gov (United States)

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

    2006-01-01

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

  15. QTL Mapping for Pest and Disease Resistance in Cassava and Coincidence of Some QTL with Introgression Regions Derived from Manihot glaziovii.

    Science.gov (United States)

    Nzuki, Inosters; Katari, Manpreet S; Bredeson, Jessen V; Masumba, Esther; Kapinga, Fortunus; Salum, Kasele; Mkamilo, Geoffrey S; Shah, Trushar; Lyons, Jessica B; Rokhsar, Daniel S; Rounsley, Steve; Myburg, Alexander A; Ferguson, Morag E

    2017-01-01

    Genetic mapping of quantitative trait loci (QTL) for resistance to cassava brown streak disease (CBSD), cassava mosaic disease (CMD), and cassava green mite (CGM) was performed using an F1 cross developed between the Tanzanian landrace, Kiroba, and a breeding line, AR37-80. The population was evaluated for two consecutive years in two sites in Tanzania. A genetic linkage map was derived from 106 F1 progeny and 1,974 SNP markers and spanned 18 chromosomes covering a distance of 1,698 cM. Fifteen significant QTL were identified; two are associated with CBSD root necrosis only, and were detected on chromosomes V and XII, while seven were associated with CBSD foliar symptoms only and were detected on chromosomes IV, VI, XVII, and XVIII. QTL on chromosomes 11 and 15 were associated with both CBSD foliar and root necrosis symptoms. Two QTL were found to be associated with CMD and were detected on chromosomes XII and XIV, while two were associated with CGM and were identified on chromosomes V and X. There are large Manihot glaziovii introgression regions in Kiroba on chromosomes I, XVII, and XVIII. The introgression segments on chromosomes XVII and XVIII overlap with QTL associated with CBSD foliar symptoms. The introgression region on chromosome I is of a different haplotype to the characteristic "Amani haplotype" found in the landrace Namikonga and others, and unlike some other genotypes, Kiroba does not have a large introgression block on chromosome IV. Kiroba is closely related to a sampled Tanzanian "tree cassava." This supports the observation that some of the QTL associated with CBSD resistance in Kiroba are different to those observed in another variety, Namikonga.

  16. QTL Mapping for Pest and Disease Resistance in Cassava and Coincidence of Some QTL with Introgression Regions Derived from Manihot glaziovii

    Directory of Open Access Journals (Sweden)

    Inosters Nzuki

    2017-07-01

    Full Text Available Genetic mapping of quantitative trait loci (QTL for resistance to cassava brown streak disease (CBSD, cassava mosaic disease (CMD, and cassava green mite (CGM was performed using an F1 cross developed between the Tanzanian landrace, Kiroba, and a breeding line, AR37-80. The population was evaluated for two consecutive years in two sites in Tanzania. A genetic linkage map was derived from 106 F1 progeny and 1,974 SNP markers and spanned 18 chromosomes covering a distance of 1,698 cM. Fifteen significant QTL were identified; two are associated with CBSD root necrosis only, and were detected on chromosomes V and XII, while seven were associated with CBSD foliar symptoms only and were detected on chromosomes IV, VI, XVII, and XVIII. QTL on chromosomes 11 and 15 were associated with both CBSD foliar and root necrosis symptoms. Two QTL were found to be associated with CMD and were detected on chromosomes XII and XIV, while two were associated with CGM and were identified on chromosomes V and X. There are large Manihot glaziovii introgression regions in Kiroba on chromosomes I, XVII, and XVIII. The introgression segments on chromosomes XVII and XVIII overlap with QTL associated with CBSD foliar symptoms. The introgression region on chromosome I is of a different haplotype to the characteristic “Amani haplotype” found in the landrace Namikonga and others, and unlike some other genotypes, Kiroba does not have a large introgression block on chromosome IV. Kiroba is closely related to a sampled Tanzanian “tree cassava.” This supports the observation that some of the QTL associated with CBSD resistance in Kiroba are different to those observed in another variety, Namikonga.

  17. Effects of an intervention for data-based decision making on teacher professional development

    NARCIS (Netherlands)

    Ebbeler, Johanna; Poortman, Cindy; Schildkamp, Kim

    2015-01-01

    Schools are increasingly expected to use data for school improvement. However, educators struggle with the use of data (e.g. data-based decision making). Professional development in this area is needed. Therefore, we designed and implemented a professional development program for data use: the data

  18. Identification of QTL for dorso-caudal chronic pleuritis in 12 crossbred porcine families.

    Science.gov (United States)

    Gregersen, V R; Sørensen, K K; Christensen, O F; Busch, M E; Vingborg, R K K; Velander, I H; Lund, M S; Bendixen, C

    2010-10-01

    Pleuropneumonia is a major problem in pig production. At the time of slaughter, chronic pleuritis (CP) developed from pleuropneumonia is a common finding, and breeding for a reduced incidence of CP using marker-assisted selection (MAS) would be advantageous. Before applying MAS, quantitative trait loci (QTL) or markers associated with the prevalence of CP should be identified. In this study, 7470 pigs from crosses between 12 Danish Duroc boars and 604 sows (Danish Landrace × Danish Large White) were evaluated for CP located on the dorso-caudal part of the lungs. Quantitative trait loci were identified within boar families using both a Binomial logistic regression method and a chi-square test of association. Significant QTL for CP were detected on Sus scrofa chromosomes (SSC) 2, 8, 12, 13, 14 and 18 using both methods. One QTL on SSC 8 was also detected across families. For the QTL identified within families, the odds-ratio of having CP was approximately twice as high for the unfavourable allele compared to the favourable one. These QTL and closely linked markers show promise for the development of gene-specific markers associated with a reduced incidence of CP located on the dorso-caudal part of the lungs.

  19. A fusion algorithm for joins based on collections in Odra (Object Database for Rapid Application development)

    CERN Document Server

    Satish, Laika

    2011-01-01

    In this paper we present the functionality of a currently under development database programming methodology called ODRA (Object Database for Rapid Application development) which works fully on the object oriented principles. The database programming language is called SBQL (Stack based query language). We discuss some concepts in ODRA for e.g. the working of ODRA, how ODRA runtime environment operates, the interoperability of ODRA with .net and java .A view of ODRA's working with web services and xml. Currently the stages under development in ODRA are query optimization. So we present the prior work that is done in ODRA related to Query optimization and we also present a new fusion algorithm of how ODRA can deal with joins based on collections like set, lists, and arrays for query optimization.

  20. The Development of Medicinal Plants Database for Use in Primary Health Care from Various Herbal Websites

    Directory of Open Access Journals (Sweden)

    Taweechai Anguranak

    2015-03-01

    Full Text Available The purpose of this research was to develop a Medicinal Plants Database for primary health care from various herbal websites. The system received needed data from 3 Thai herbal websites that could be reliably supplied to the database. The result from extracting data showed the amount of precision, recall and F-measure to be more than 95% and provided information about plant data which was extracted from those websites into the relational database. The users could search for data which was related to herbs from the application. The assessment of efficiency was conducted by using a developed system from the data of questionnaires by asking 25 users. The total results show that the average of common users equals 4.17 and the standard deviation equals 0.60. This developed system showed a very good quality and in the result available to use.

  1. Organization's Orderly Interest Exploration: Inception, Development and Insights of AIAA's Topics Database

    Science.gov (United States)

    Marshall, Jospeh R.; Morris, Allan T.

    2007-01-01

    Since 2003, AIAA's Computer Systems and Software Systems Technical Committees (TCs) have developed a database that aids technical committee management to map technical topics to their members. This Topics/Interest (T/I) database grew out of a collection of charts and spreadsheets maintained by the TCs. Since its inception, the tool has evolved into a multi-dimensional database whose dimensions include the importance, interest and expertise of TC members and whether or not a member and/or a TC is actively involved with the topic. In 2005, the database was expanded to include the TCs in AIAA s Information Systems Group and then expanded further to include all AIAA TCs. It was field tested at an AIAA Technical Activities Committee (TAC) Workshop in early 2006 through live access by over 80 users. Through the use of the topics database, TC and program committee (PC) members can accomplish relevant tasks such as: to identify topic experts (for Aerospace America articles or external contacts), to determine the interest of its members, to identify overlapping topics between diverse TCs and PCs, to guide new member drives and to reveal emerging topics. This paper will describe the origins, inception, initial development, field test and current version of the tool as well as elucidate the benefits and insights gained by using the database to aid the management of various TC functions. Suggestions will be provided to guide future development of the database for the purpose of providing dynamics and system level benefits to AIAA that currently do not exist in any technical organization.

  2. Database Development for Electrical, Electronic, and Electromechanical (EEE) Parts for the International Space Station Alpha

    Science.gov (United States)

    Wassil-Grimm, Andrew D.

    1997-01-01

    More effective electronic communication processes are needed to transfer contractor and international partner data into NASA and prime contractor baseline database systems. It is estimated that the International Space Station Alpha (ISSA) parts database will contain up to one million parts each of which may require database capabilities for approximately one thousand bytes of data for each part. The resulting gigabyte database must provide easy access to users who will be preparing multiple analyses and reports in order to verify as-designed, as-built, launch, on-orbit, and return configurations for up to 45 missions associated with the construction of the ISSA. Additionally, Internet access to this data base is strongly indicated to allow multiple user access from clients located in many foreign countries. This summer's project involved familiarization and evaluation of the ISSA Electrical, Electronic, and Electromechanical (EEE) Parts data and the process of electronically managing these data. Particular attention was devoted to improving the interfaces among the many elements of the ISSA information system and its global customers and suppliers. Additionally, prototype queries were developed to facilitate the identification of data changes in the data base, verifications that the designs used only approved parts, and certifications that the flight hardware containing EEE parts was ready for flight. This project also resulted in specific recommendations to NASA for further development in the area of EEE parts database development and usage.

  3. Database-centric Development of Menus andGraphic User Interfaces

    Directory of Open Access Journals (Sweden)

    R.B. Aggarwal

    2007-01-01

    Full Text Available The database-centric approach to graphic user interface (GUI development, quickly andeasily manages standardisation and modification of labels and look and feel of controls bykeeping various control-creation data into the database. The runtime generation of controlsprovides the flexibility to control their creation and modification issues. This method freezes theapplication code once the development is over. The process of recompilation is eliminated whencreation or modification of controls is done. Dynamic controls such as menus, label, text box,button, combo box, list box, group box, check box, radio button, tab control, spin button, treecontrol can be easily formed and controlled using this approach.

  4. A study of technical signs in science: implications for lexical database development.

    Science.gov (United States)

    Lang, Harry G; Hupper, Mary Laporta; Monte, Denise A; Brown, Scott W; Babb, Ivar; Scheifele, Pete M

    2007-01-01

    Both classroom instruction and lexical database development stand to benefit from applied research on sign language, which takes into consideration American Sign Language rules, pedagogical issues, and teacher characteristics. In this study of technical science signs, teachers' experience with signing and, especially, knowledge of content, were found to be essential for the identification of signs appropriate for instruction. The results of this study also indicate a need for a systematic approach to examine both sign selection and its impact on learning by deaf students. Recommendations are made for the development of lexical databases and areas of research for optimizing the use of sign language in instruction.

  5. Development of the Experimental Photo-Nuclear Reaction Database in Hokkaido University

    Science.gov (United States)

    Makinaga, A.

    2015-10-01

    Nuclear databases are important tools to apply nuclear phenomena to various fields of nuclear engineering. It is now recognized that the databases must be further developed for photo-nuclear reaction data for nuclear security, safety and nonproliferation applications. Hokkaido University Nuclear Reaction Data Centre (JCPRG) has contributed to the Experimental Nuclear Reaction Data Library (EXFOR) which is developed by the International Network of Nuclear Reaction Data Centres under coordination by IAEA. We report here on the recent compilation of the nuclear data files for the photonuclear reaction.

  6. The power of QTL mapping with RILs.

    Directory of Open Access Journals (Sweden)

    Shohei Takuno

    Full Text Available QTL (quantitative trait loci mapping is commonly used to identify genetic regions responsible to important phenotype variation. A common strategy of QTL mapping is to use recombinant inbred lines (RILs, which are usually established by several generations of inbreeding of an F1 population (usually up to F6 or F7 populations. As this inbreeding process involves a large amount of labor, we are particularly interested in the effect of the number of inbreeding generations on the power of QTL mapping; a part of the labor could be saved if a smaller number of inbreeding provides sufficient power. By using simulations, we investigated the performance of QTL mapping with recombinant inbred lines (RILs. As expected, we found that the power of F4 population could be almost comparable to that of F6 and F7 populations. A potential problem in using F4 population is that a large proportion of RILs are heterozygotes. We here introduced a new method to partly relax this problem. The performance of this method was verified by simulations with a wide range of parameters including the size of the segregation population, recombination rate, genome size and the density of markers. We found our method works better than the commonly used standard method especially when there are a number of heterozygous markers. Our results imply that in most cases, QTL mapping does not necessarily require RILs at F6 or F7 generations; rather, F4 (or even F3 populations would be almost as useful as F6 or F7 populations. Because the cost to establish a number of RILs for many generations is enormous, this finding will cause a reduction in the cost of QTL mapping, thereby accelerating gene mapping in many species.

  7. Genetic, physiological, and gene expression analyses reveal that multiple QTL enhance yield of rice mega-variety IR64 under drought.

    Directory of Open Access Journals (Sweden)

    B P Mallikarjuna Swamy

    Full Text Available BACKGROUND: Rice (Oryza sativa L. is a highly drought sensitive crop, and most semi dwarf rice varieties suffer severe yield losses from reproductive stage drought stress. The genetic complexity of drought tolerance has deterred the identification of agronomically relevant quantitative trait loci (QTL that can be deployed to improve rice yield under drought in rice. Convergent evidence from physiological characterization, genetic mapping, and multi-location field evaluation was used to address this challenge. METHODOLOGY/PRINCIPAL FINDINGS: Two pairs of backcross inbred lines (BILs from a cross between drought-tolerant donor Aday Sel and high-yielding but drought-susceptible rice variety IR64 were produced. From six BC4F3 mapping populations produced by crossing the +QTL BILs with the -QTL BILs and IR64, four major-effect QTL--one each on chromosomes 2, 4, 9, and 10--were identified. Meta-analysis of transcriptome data from the +QTL/-QTL BILs identified differentially expressed genes (DEGs significantly associated with QTL on chromosomes 2, 4, 9, and 10. Physiological characterization of BILs showed increased water uptake ability under drought. The enrichment of DEGs associated with root traits points to differential regulation of root development and function as contributing to drought tolerance in these BILs. BC4F3-derived lines with the QTL conferred yield advantages of 528 to 1875 kg ha⁻¹ over IR64 under reproductive-stage drought stress in the targeted ecosystems of South Asia. CONCLUSIONS/SIGNIFICANCE: Given the importance of rice in daily food consumption and the popularity of IR64, the BC4F3 lines with multiple QTL could provide higher livelihood security to farmers in drought-prone environments. Candidate genes were shortlisted for further characterization to confirm their role in drought tolerance. Differential yield advantages of different combinations of the four QTL reported here indicate that future research should include

  8. QTL mapping for two commercial traits in farmed saltwater crocodiles (Crocodylus porosus).

    Science.gov (United States)

    Miles, L G; Isberg, S R; Thomson, P C; Glenn, T C; Lance, S L; Dalzell, P; Moran, C

    2010-04-01

    The recent generation of a genetic linkage map for the saltwater crocodile (Crocodylus porosus) has now made it possible to carry out the systematic searches necessary for the identification of quantitative trait loci (QTL) affecting traits of economic, as well as evolutionary, importance in crocodilians. In this study, we conducted genome-wide scans for two commercially important traits, inventory head length (which is highly correlated with growth rate) and number of scale rows (SR, a skin quality trait), for the existence of QTL in a commercial population of saltwater crocodiles at Darwin Crocodile Farm, Northern Territory, Australia. To account for the uncommonly large difference in sex-specific recombination rates apparent in the saltwater crocodile, a duel mapping strategy was employed. This strategy employed a sib-pair analysis to take advantage of our full-sib pedigree structure, together with a half-sib analysis to account for, and take advantage of, the large difference in sex-specific recombination frequencies. Using these approaches, two putative QTL regions were identified for SR on linkage group 1 (LG1) at 36 cM, and on LG12 at 0 cM. The QTL identified in this investigation represent the first for a crocodilian and indeed for any non-avian member of the Class Reptilia. Mapping of QTL is an important first step towards the identification of genes and causal mutations for commercially important traits and the development of selection tools for implementation in crocodile breeding programmes for the industry.

  9. Development and application of basis database for materials life cycle assessment in china

    Science.gov (United States)

    Li, Xiaoqing; Gong, Xianzheng; Liu, Yu

    2017-03-01

    As the data intensive method, high quality environmental burden data is an important premise of carrying out materials life cycle assessment (MLCA), and the reliability of data directly influences the reliability of the assessment results and its application performance. Therefore, building Chinese MLCA database is the basic data needs and technical supports for carrying out and improving LCA practice. Firstly, some new progress on database which related to materials life cycle assessment research and development are introduced. Secondly, according to requirement of ISO 14040 series standards, the database framework and main datasets of the materials life cycle assessment are studied. Thirdly, MLCA data platform based on big data is developed. Finally, the future research works were proposed and discussed.

  10. Development of a database system for operational use in the selection of titanium alloys

    Science.gov (United States)

    Han, Yuan-Fei; Zeng, Wei-Dong; Sun, Yu; Zhao, Yong-Qing

    2011-08-01

    The selection of titanium alloys has become a complex decision-making task due to the growing number of creation and utilization for titanium alloys, with each having its own characteristics, advantages, and limitations. In choosing the most appropriate titanium alloys, it is very essential to offer a reasonable and intelligent service for technical engineers. One possible solution of this problem is to develop a database system (DS) to help retrieve rational proposals from different databases and information sources and analyze them to provide useful and explicit information. For this purpose, a design strategy of the fuzzy set theory is proposed, and a distributed database system is developed. Through ranking of the candidate titanium alloys, the most suitable material is determined. It is found that the selection results are in good agreement with the practical situation.

  11. A fast algorithm for estimating transmission probabilities in QTL detection designs with dense maps

    Directory of Open Access Journals (Sweden)

    Gilbert Hélène

    2009-11-01

    Full Text Available Abstract Background In the case of an autosomal locus, four transmission events from the parents to progeny are possible, specified by the grand parental origin of the alleles inherited by this individual. Computing the probabilities of these transmission events is essential to perform QTL detection methods. Results A fast algorithm for the estimation of these probabilities conditional to parental phases has been developed. It is adapted to classical QTL detection designs applied to outbred populations, in particular to designs composed of half and/or full sib families. It assumes the absence of interference. Conclusion The theory is fully developed and an example is given.

  12. A database framework of digital forestry towards sustainable forestry development in China

    Institute of Scientific and Technical Information of China (English)

    ZHAO Jingzhu; WANG Yanchun; DONG Rencai

    2006-01-01

    Six forestry scientific and technological projects being actualized in China were the implementations of ecological construction and security, development of forestry biological technique and fine variety cultivation, protection and utilization of forest biological germplasm resources, development of forestry bio-industry and digital forestry, and construction of forestry innovation ability. Among them, digital forestry was an effective measure to improve the ability of forestry innovation, to realize resources sharing, and to develop sustainable forestry. Spatial database of digital forestry should be constructed according to the criteria and index system of forest sustainable management. Based on analyzing the status and advances of China's digital forestry construction, a database framework of digital forestry towards sustainable forestry development was studied and established preparatorily. The database was divided into four layers as theory layer, system layer, status layer, and parameter layer. It was concluded that during the process of digital forestry platform construction, the relative social, economic, and politic data should be considered and collected, which meant that the database should represent not only the current forestry development, but also the social, politic, and economic situations. Constructing China's digital forestry information platform under full utilization of idea and index system for sustainable forest management was urgent and important.

  13. Geothermal resource areas database for monitoring the progress of development in the United States

    Energy Technology Data Exchange (ETDEWEB)

    Lawrence, J.D.; Lepman, S.R.; Leung, K.; Phillips, S.L.

    1981-01-01

    The Geothermal Resource Areas Database (GRAD) and associated data system provide broad coverage of information on the development of geothermal resources in the United States. The system is designed to serve the information requirements of the National Progress Monitoring System. GRAD covers development from the initial exploratory phase through plant construction and operation. Emphasis is on actual facts or events rather than projections and scenarios. The selection and organization of data are based on a model of geothermal development. Subjects in GRAD include: names and addresses, leases, area descriptions, geothermal wells, power plants, direct use facilities, and environmental and regulatory aspects of development. Data collected in the various subject areas are critically evaluated, and then entered into an on-line interactive computer system. The system is publically available for retrieval and use. The background of the project, conceptual development, software development, and data collection are described here. Appendices describe the structure of the database in detail.

  14. Fine-mapping of a major QTL controlling angular leaf spot resistance in common bean (Phaseolus vulgaris L.).

    Science.gov (United States)

    Keller, Beat; Manzanares, Chloe; Jara, Carlos; Lobaton, Juan David; Studer, Bruno; Raatz, Bodo

    2015-05-01

    A major QTL for angular leaf spot resistance in the common bean accession G5686 was fine-mapped to a region containing 36 candidate genes. Markers have been developed for marker-assisted selection. Common bean (Phaseolus vulgaris L.) is an important grain legume and an essential protein source for human nutrition in developing countries. Angular leaf spot (ALS) caused by the pathogen Pseudocercospora griseola (Sacc.) Crous and U. Braun is responsible for severe yield losses of up to 80%. Breeding for resistant cultivars is the most ecological and economical means to control ALS and is particularly important for yield stability in low-input agriculture. Here, we report on a fine-mapping approach of a major quantitative trait locus (QTL) ALS4.1(GS, UC) for ALS resistance in a mapping population derived from the resistant genotype G5686 and the susceptible cultivar Sprite. 180 F3 individuals of the mapping population were evaluated for ALS resistance and genotyped with 22 markers distributed over 11 genome regions colocating with previously reported QTL for ALS resistance. Multiple QTL analysis identified three QTL regions, including one major QTL on chromosome Pv04 at 43.7 Mbp explaining over 75% of the observed variation for ALS resistance. Additional evaluation of 153 F4, 89 BC1F2 and 139 F4/F5/BC1F3 descendants with markers in the region of the major QTL delimited the region to 418 kbp harboring 36 candidate genes. Among these, 11 serine/threonine protein kinases arranged in a repetitive array constitute promising candidate genes for controlling ALS resistance. Single nucleotide polymorphism markers cosegregating with the major QTL for ALS resistance have been developed and constitute the basis for marker-assisted introgression of ALS resistance into advanced breeding germplasm of common bean.

  15. Development of a Cast Iron Fatigue Properties Database for use with Modern Design Methods

    Energy Technology Data Exchange (ETDEWEB)

    DeLa' O, James, D.; Gundlach, Richard, B.; Tartaglia, John, M.

    2003-09-18

    A reliable and comprehensive database of design properties for cast iron is key to full and efficient utilization of this versatile family of high production-volume engineering materials. A database of strain-life fatigue properties and supporting data for a wide range of structural cast irons representing industry standard quality was developed in this program. The database primarily covers ASTM/SAE standard structural grades of ADI, CGI, ductile iron and gray iron as well as an austempered gray iron. Twenty-two carefully chosen materials provided by commercial foundries were tested and fifteen additional datasets were contributed by private industry. The test materials are principally distinguished on the basis of grade designation; most grades were tested in a 25 mm section size and in a single material condition common for the particular grade. Selected grades were tested in multiple sections-sizes and/or material conditions to delineate the properties associated with a range of materials for the given grade. The cyclic properties are presented in terms of the conventional strain-life formalism (e.g., SAE J1099). Additionally, cyclic properties for gray iron and CGI are presented in terms of the Downing Model, which was specifically developed to treat the unique stress-strain response associated with gray iron (and to a lesser extent with CGI). The test materials were fully characterized in terms of alloy composition, microstructure and monotonic properties. The CDROM database presents the data in various levels of detail including property summaries for each material, detailed data analyses for each specimen and raw monotonic and cyclic stress-strain data. The CDROM database has been published by the American Foundry Society (AFS) as an AFS Research Publication entitled ''Development of a Cast Iron Fatigue Properties Database for Use in Modern Design Methods'' (ISDN 0-87433-267-2).

  16. Development of a Publicly Available, Comprehensive Database of Fiber and Health Outcomes: Rationale and Methods.

    Directory of Open Access Journals (Sweden)

    Kara A Livingston

    Full Text Available Dietary fiber is a broad category of compounds historically defined as partially or completely indigestible plant-based carbohydrates and lignin with, more recently, the additional criteria that fibers incorporated into foods as additives should demonstrate functional human health outcomes to receive a fiber classification. Thousands of research studies have been published examining fibers and health outcomes.(1 Develop a database listing studies testing fiber and physiological health outcomes identified by experts at the Ninth Vahouny Conference; (2 Use evidence mapping methodology to summarize this body of literature. This paper summarizes the rationale, methodology, and resulting database. The database will help both scientists and policy-makers to evaluate evidence linking specific fibers with physiological health outcomes, and identify missing information.To build this database, we conducted a systematic literature search for human intervention studies published in English from 1946 to May 2015. Our search strategy included a broad definition of fiber search terms, as well as search terms for nine physiological health outcomes identified at the Ninth Vahouny Fiber Symposium. Abstracts were screened using a priori defined eligibility criteria and a low threshold for inclusion to minimize the likelihood of rejecting articles of interest. Publications then were reviewed in full text, applying additional a priori defined exclusion criteria. The database was built and published on the Systematic Review Data Repository (SRDR™, a web-based, publicly available application.A fiber database was created. This resource will reduce the unnecessary replication of effort in conducting systematic reviews by serving as both a central database archiving PICO (population, intervention, comparator, outcome data on published studies and as a searchable tool through which this data can be extracted and updated.

  17. Design, Development, and Maintenance of the GLOBE Program Website and Database

    Science.gov (United States)

    Brummer, Renate; Matsumoto, Clifford

    2004-01-01

    This is a 1-year (Fy 03) proposal to design and develop enhancements, implement improved efficiency and reliability, and provide responsive maintenance for the operational GLOBE (Global Learning and Observations to Benefit the Environment) Program website and database. This proposal is renewable, with a 5% annual inflation factor providing an approximate cost for the out years.

  18. Development and Validation of Search Filters to Identify Articles on Family Medicine in Online Medical Databases

    NARCIS (Netherlands)

    Pols, D.H.; Bramer, W.M.; Bindels, P.J.; Laar, F.A. van de; Bohnen, A.M.

    2015-01-01

    Physicians and researchers in the field of family medicine often need to find relevant articles in online medical databases for a variety of reasons. Because a search filter may help improve the efficiency and quality of such searches, we aimed to develop and validate search filters to identify

  19. Development and validation of search filters to identify articles on family medicine in online medical databases

    NARCIS (Netherlands)

    D.H.J. Pols (David); W.M. Bramer (Wichor); P.J.E. Bindels (Patrick J.E.); F.A. van de Laar (Floris A.); A.M. Bohnen

    2015-01-01

    textabstractPhysicians and researchers in the field of family medicine often need to find relevant articles in online medical databases for a variety of reasons. Because a search filter may help improve the efficiency and quality of such searches, we aimed to develop and validate search filters to

  20. Development and Validation of Search Filters to Identify Articles on Family Medicine in Online Medical Databases

    NARCIS (Netherlands)

    Pols, D.H.; Bramer, W.M.; Bindels, P.J.; Laar, F.A. van de; Bohnen, A.M.

    2015-01-01

    Physicians and researchers in the field of family medicine often need to find relevant articles in online medical databases for a variety of reasons. Because a search filter may help improve the efficiency and quality of such searches, we aimed to develop and validate search filters to identify rese

  1. Development and validation of search filters to identify articles on family medicine in online medical databases

    NARCIS (Netherlands)

    D.H.J. Pols (David); W.M. Bramer (Wichor M); P.J.E. Bindels (Patrick J.E.); F.A. van de Laar (Floris A.); A.M. Bohnen

    2015-01-01

    textabstractPhysicians and researchers in the field of family medicine often need to find relevant articles in online medical databases for a variety of reasons. Because a search filter may help improve the efficiency and quality of such searches, we aimed to develop and validate search filters to i

  2. Development of a database system for the calculation of indicators of environmental pressure caused by transport

    DEFF Research Database (Denmark)

    Giannouli, Myrsini; Samaras, Zissis; Keller, Mario

    2006-01-01

    The scope of this paper is to summarise a methodology developed for TRENDS (TRansport and ENvironment Database System-TRENDS). The main objective of TRENDS was the calculation of environmental pressure indicators caused by transport. The environmental pressures considered are associated with air...

  3. Advances on methods for mapping QTL in plant

    Institute of Scientific and Technical Information of China (English)

    ZHANG Yuan-Ming

    2006-01-01

    Advances on methods for mapping quantitative trait loci (QTL) are firstly summarized.Then, some new methods, including mapping multiple QTL, fine mapping of QTL, and mapping QTL for dynamic traits, are mainly described. Finally, some future prospects are proposed, including how to dig novel genes in the germplasm resource, map expression QTL (eQTL) by the use of all markers,phenotypes and micro-array data, identify QTL using genetic mating designs and detect viability loci. The purpose is to direct plant geneticists to choose a suitable method in the inheritance analysis of quantitative trait and in search of novel genes in germplasm resource so that more potential genetic information can be uncovered.

  4. A cis-eQTL in AHI1 confers risk to schizophrenia in European populations.

    Science.gov (United States)

    Ren, Zhimin; Qiu, Anli; Zhang, Aiqi; Huang, Lijun; Rao, Shuquan

    2016-10-06

    Schizophrenia is a devastating mental disorder, with heritability as high as 80%. Although genome-wide association studies have identified multiple promising risk variants of schizophrenia, they could only explain a small portion of the disease heritability, and other variants with low to moderate effect remain to be identified. Abelson helper integration site 1 (AHI1) is highly expressed in mammals throughout the developing brain, with lower expression continuing into adulthood. Besides, previous evidence suggested that AHI1 expression was changed in schizophrenia patients. Furthermore, association signal between AHI1 variants and schizophrenia has been reported in several European samples. In the present study, we first analyzed two expression quantitative trait loci (eQTL) datasets in healthy individuals and investigated the associations of eQTL of AHI1 with schizophrenia in independent European samples. We observed that a cis-eQTL of AHI1, rs11154801, showed significant association with AHI1 expression in both datasets (PEuropean populations.

  5. Development of a database management system for Coal Combustion By-Products (CCBs)

    Energy Technology Data Exchange (ETDEWEB)

    O`Leary, E.M.; Peck, W.D.; Pflughoeft-Hassett, D.F. [and others

    1997-06-01

    Coal combustion by-products (CCBs) are produced in high volumes worldwide. Utilization of these materials is economically and environmentally advantageous and is expected to increase as disposal costs increase. The American Coal Ash Association (ACAA) is developing a database to contain characterization and utilization information on CCBs. This database will provide information for use by managers, marketers, operations personnel, and researchers that will aid in their decision making and long-term planning for issues related to CCBs. The comprehensive nature of the database and the interactive user application will enable ACAA members to efficiently and economically access a wealth of data on CCBs and will promote the technically sound, environmentally safe, and commercially competitive use of CCBs.

  6. The iterative and incremental development on real-time database systems

    Science.gov (United States)

    Guo, Shuang; Li, Haiying; Ding, Chunfang; Ren, Honghong

    2011-12-01

    Our new idea can make the system classification technology requirements with value-oriented requirements more easily and less ambiguous. So, the new concept is platform to refine the value orientation for the requirements of iterative and incremental development real-time database system. This idea gives us life time keep a single platform of real-time database update user needs and full availability, guarantees the reliability of the real-time database system. The method of the value orientation is the evolution of proof that the batter support requirements and specifications. This new model more system structure of the definition and model is better than the existing iterative and incremental model. All kinds of relations attribute and traceability value the requirement to alleviate.

  7. QTL Information Table: 1041 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available yashi, H., Hirayama, M., Ohta, H., Nemoto, H., Kato, H., Ando, I., Ohtsubo, K., rsquo, ichi, Yano, M., and Imbe, T. (2007). QTL Detec...tion for Eating Quality Including Glossiness, Stickiness, Taste and Hardness of Cooked Rice. Breeding Science 57, 231-242. ...

  8. QTL Information Table: 1039 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available yashi, H., Hirayama, M., Ohta, H., Nemoto, H., Kato, H., Ando, I., Ohtsubo, K., rsquo, ichi, Yano, M., and Imbe, T. (2007). QTL Detec...tion for Eating Quality Including Glossiness, Stickiness, Taste and Hardness of Cooked Rice. Breeding Science 57, 231-242. ...

  9. QTL Information Table: 454 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 61 rgn Zhuang, J.Y., Fan, Y.Y., Wu, J.L., Xia, Y.W., and Zheng, K.L. (2000). Mapping major and minor QTL for rice CMS-WA fertility restoration. Rice Genetics Newsletter 17, 56-59. ...

  10. QTL Information Table: 823 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Resistance or Tolerance Other soil stress tolerance Plant height (Low N level, Soil... QTL × N-level interaction for plant height in rice (Oriza Sativa L.). Plant and Soil 236, 237-242. http://dx.doi.org/10.1023/A:1012787510201 ...

  11. QTL Information Table: 820 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Resistance or Tolerance Other soil stress tolerance Plant height (High N level, Soi...QTL × N-level interaction for plant height in rice (Oriza Sativa L.). Plant and Soil 236, 237-242. http://dx.doi.org/10.1023/A:1012787510201 ...

  12. QTL Information Table: 819 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Resistance or Tolerance Other soil stress tolerance Plant height (High N level, Soi.... QTL × N-level interaction for plant height in rice (Oriza Sativa L.). Plant and Soil 236, 237-242. http://dx.doi.org/10.1023/A:1012787510201 ...

  13. QTL Information Table: 839 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available siological and agronomic characters on a rice function map: QTL analysis and compar...maru, K., Yano, M., Aoki, N., Ono, K., Hirose, T., Lin, S.Y., Monna, L., Sasaki, T., and Ohsugi, R. (2001). Toward the mapping of phy

  14. QTL Information Table: 360 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available H.C., McLaren, G., and Khush, G.S. (2003). Identification of QTL for growth- and ...Zheng, K.L., Liu, G.F., Wang, G.C., Sidhu, J.S., Srivantaneeyakul, S., Singh, V.P., Bagali, P.G., Prasanna,

  15. QTL Information Table: 929 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available val RIL Bala Azucena B RZ2 G1465 C189 pha Price, A.H., Steele, K.A., Moore, B.J., Barraclough, P.P., and Clark, L.J. (2000). A combin...ed RFLP and AFLP linkage map of upland rice ( Oryza sativa L.) used to identify QTL

  16. QTL Information Table: 701 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qLTG-7 Resistance or Tolerance Cold tolerance low temperature germinability RFLP C)...imura, A. (2004). Inheritance and QTL mapping of low temperature germinability in rice (Oryza sativa L.). Yi Chuan Xue Bao 31, 701-706. ...

  17. QTL Information Table: 821 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Resistance or Tolerance Other soil stress tolerance Plant height (High N level, Soi...l culture , Maturity ) RFLP C)Interval RIL IR64 Azucena B RZ730 RZ801 pha Fang, P., and Wu, P. (2001). QTL × N-level

  18. QTL Information Table: 825 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Resistance or Tolerance Other soil stress tolerance Plant height (Low N level, Soil... culture , Maturity ) RFLP C)Interval RIL IR64 Azucena B RZ730 RZ801 pha Fang, P., and Wu, P. (2001). QTL × N-level

  19. QTL Information Table: 1040 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qOE3-1 Physiological trait Eating quality overall evaluation SSR B)Fine F3 SL207 Ko...., and Imbe, T. (2007). QTL Detection for Eating Quality Including Glossiness, Stickiness, Taste and Hardness of Cooked Rice. Breeding Science 57, 231-242. ...

  20. QTL Information Table: 1042 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qTA3 Physiological trait Eating quality taste SSR B)Fine F3 SL207 Koshihikari RM133... (2007). QTL Detection for Eating Quality Including Glossiness, Stickiness, Taste and Hardness of Cooked Rice. Breeding Science 57, 231-242. ...

  1. QTL Information Table: 93 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available l DHL IRAT109 Yuefu B C742 C904 pha Li, Z., Mu, P., Li, C., Zhang, H., Li, Z., Gao, Y., and Wang, X. (2005). QTL mapping of root trai...ts in a doubled haploid population from a cross between upland and lowland japonica rice in three environments. Theor Appl Genet 110, 1244-1252. ...

  2. QTL Information Table: 210 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 138 RZ398 pha Zhuang, J.Y., Fan, Y.Y., Wu, J.L., Xia, Y.W., and Zheng, K.L. (2001). Comparison of the detection of QTL for yield trai...ts in different generations of a rice cross using two mapping approaches. Yi Chuan Xue Bao 28, 458-464. ...

  3. QTL Information Table: 288 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Physiological trait Eating quality hot paste viscosity RFLP C)Interval DHL IR64 Azu...cena A RG139 RZ58 pha Bao, J.S., Wu, Y.R., Hu, B., Wu, P., Cui, H.R., and Shu, Q.Y. (2002). QTL for rice grain quality

  4. QTL Information Table: 290 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Physiological trait Eating quality breakdown RFLP C)Interval DHL IR64 Azucena A RZ5...90 RG214 pha Bao, J.S., Wu, Y.R., Hu, B., Wu, P., Cui, H.R., and Shu, Q.Y. (2002). QTL for rice grain quality

  5. QTL Information Table: 289 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Physiological trait Eating quality cool paste viscosity RFLP C)Interval DHL IR64 Az...ucena A RZ574 RZ284 pha Bao, J.S., Wu, Y.R., Hu, B., Wu, P., Cui, H.R., and Shu, Q.Y. (2002). QTL for rice grain quality

  6. QTL Information Table: 4 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available alk6-1 Physiological trait Eating quality Alkali-spread.score SSR C)Interval DH fro...J., Castano, C., Bergman, C., and Oard, J.H. (2004). QTL mapping of grain quality traits from the interspecific cross Oryza sativa x O. glaberrima. Theor Appl Genet 109, 630-639. ...

  7. QTL Information Table: 2 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available hr6 Physiological trait Eating quality Head rice SSR C)Interval DH from BC3F1 Caiap...C., Bergman, C., and Oard, J.H. (2004). QTL mapping of grain quality traits from the interspecific cross Oryza sativa x O. glaberrima. Theor Appl Genet 109, 630-639. ...

  8. QTL Information Table: 181 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Glu6 Physiological trait Eating quality glutelin subunit polypeptides A)Physical OS...JNBa0083F15 pha Xu, J.C., Li, J.Z., Zheng, X.W., Zou, L.X., and Zhu, L.H. (2001). QTL mapping of the root traits in rice seedling. Yi Chuan Xue Bao 28, 433-438. ...

  9. QTL Information Table: 321 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qCR-3 Physiological trait Source activity chlorophyll a/b ratio RFLP C)Interval RIL... Kinmaze DV85 B C25 R518 rgn Hu, M.L., Wang, C.M., Yang, Q.H., Zhai, H.Q., and Wan, J.M. (2004). QTL analysis for trait

  10. QTL Information Table: 467 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Morphological trait Root Maximum Root Length RFLP C)Interval DHL ZYQ8 Jingxi 17 B C...711 G103 pha Xu, J.C., Li, J.Z., Zheng, X.W., Zou, L.X., and Zhu, L.H. (2001). QTL mapping of the root traits in rice seedling. Yi Chuan Xue Bao 28, 433-438. ...

  11. QTL Information Table: 450 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Morphological trait Seed grain yield RFLP C)Interval RIL Zhenshan 97B Milyang 46 RG...138 RZ398 rgn Zhuang, J.Y., Fan, Y.Y., Wu, J.L., Xia, Y.W., and Zheng, K.L. (2000). Comparison of QTL detection for yield trait

  12. QTL Information Table: 322 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qCC-1 Physiological trait Source activity chlorophyll content of leaf RFLP C)Interv...al RIL Kinmaze DV85 B C122 R1012 rgn Hu, M.L., Wang, C.M., Yang, Q.H., Zhai, H.Q., and Wan, J.M. (2004). QTL analysis for trait

  13. QTL Information Table: 211 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Morphological trait Seed 1000-grain weight RFLP C)Interval RIL Zhenshan 97B Milyang...detection of QTL for yield traits in different generations of a rice cross using two mapping approaches. Yi Chuan Xue Bao 28, 458-464. ...

  14. QTL Information Table: 449 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Morphological trait Seed 1000 grain weight RFLP C)Interval F2 Zhenshan 97B Milyang ...46 RG543 RG81 rgn Zhuang, J.Y., Fan, Y.Y., Wu, J.L., Xia, Y.W., and Zheng, K.L. (2000). Comparison of QTL detection for yield trait

  15. QTL Information Table: 380 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available C)Interval RIL IR64 O. rufipogon (Acc 106424) B RG28 RM223 pha Nguyen, B.D., Brar, D.S., Bui, B.C., Nguyen,... T.V., Pham, L.N., and Nguyen, H.T. (2003). Identification and mapping of the QTL for aluminum tolerance int

  16. QTL Information Table: 432 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available DHL CT9993-5-10-1-M IR62266-42-6-2 B CDO20 pha Nguyen, T.T., Klueva, N., Chamareck, V., Aarti, A., Magpanta...y, G., Millena, A.C., Pathan, M.S., and Nguyen, H.T. (2004). Saturation mapping of QTL regions and identific

  17. QTL Information Table: 381 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available re C)Interval RIL IR64 O. rufipogon (Acc 106424) B RG28 RM223 pha Nguyen, B.D., Brar, D.S., Bui, B.C., Nguye...n, T.V., Pham, L.N., and Nguyen, H.T. (2003). Identification and mapping of the QTL for aluminum tolerance i

  18. QTL Information Table: 435 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Interval DHL CT9993-5-10-1-M IR62266-42-6-2 A RG9 pha Nguyen, T.T., Klueva, N., Chamareck, V., Aarti, A., Ma...gpantay, G., Millena, A.C., Pathan, M.S., and Nguyen, H.T. (2004). Saturation mapping of QTL regions and ide

  19. QTL Information Table: 434 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available C)Interval DHL CT9993-5-10-1-M IR62266-42-6-2 A RG9 pha Nguyen, T.T., Klueva, N., Chamareck, V., Aarti, A., ...Magpantay, G., Millena, A.C., Pathan, M.S., and Nguyen, H.T. (2004). Saturation mapping of QTL regions and i

  20. QTL Information Table: 433 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available erval DHL CT9993-5-10-1-M IR62266-42-6-2 A RG257 R1261 pha Nguyen, T.T., Klueva, N., Chamareck, V., Aarti, A...., Magpantay, G., Millena, A.C., Pathan, M.S., and Nguyen, H.T. (2004). Saturation mapping of QTL regions an

  1. QTL Information Table: 430 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available DHL CT9993-5-10-1-M IR62266-42-6-2 B RG140 pha Nguyen, T.T., Klueva, N., Chamareck, V., Aarti, A., Magpantay..., G., Millena, A.C., Pathan, M.S., and Nguyen, H.T. (2004). Saturation mapping of QTL regions and identifica

  2. QTL Information Table: 431 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available al DHL CT9993-5-10-1-M IR62266-42-6-2 A C711 pha Nguyen, T.T., Klueva, N., Chamareck, V., Aarti, A., Magpant...ay, G., Millena, A.C., Pathan, M.S., and Nguyen, H.T. (2004). Saturation mapping of QTL regions and identifi

  3. QTL Information Table: 752 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available qGW3 Morphological trait Seed Grain width Mixture C)Interval F2 98SQ1496 Koshihikari B C706 C12534S pha Miyata, M., Yamamoto, T., Komori, T., and Nitta, N. (2007). Marker-assisted selection and evaluation of the QTL for stigma exsertion under japonica rice genetic background. Theor Appl Genet 114, 539-548. ...

  4. QTL Information Table: 626 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Morphological trait Shoot/Seedling Mesocotyl-length RFLP d)Co-segregated F2 Labelle Black Gora B RZ403 rgn Redofia, E.D., and Mackill, D.J. (1994). Identification and internal mapping of seedling vigor QTL's in rice. Rice Genetics Newsletter 11, 124-126. ...

  5. QTL Information Table: 887 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available nd Yashima, S. (1998). Identification of QTL for salt tolerance in rice via molecular markers. . Chin. J. Rice Sci. 12, 72-78 ... ...segregated RIL Tesanai 2 CB A RG716 pha Lin, H.X., Yanagihara, S., Zhuang, J.Y., Senboku, T., Zheng, K.L., a

  6. QTL Information Table: 917 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available RIL Nekken-1 IR36 RM5586 RM3916 RM3839 pha Ochiai, K., Uemura, S., Shimizu, A., Okumoto, Y., and Matoh, T. (...2008). Boron toxicity in rice (Oryza sativa L.). I. Quantitative trait locus (QTL) analysis of tolerance to boron toxicity. Theor Appl Genet 117, 125-133. ...

  7. QTL Information Table: 131 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available 2-3SY Physiological trait Source activity biomass yield RFLP C)Interval DHL IR64 Az...ucena A RG171 RG157 pha Liu, G.F., Yang, J., and Zhu, J. (2006). Mapping QTL for biomass yield and its components in rice (Oryza sativa L.). Yi Chuan Xue Bao 33, 607-616. ...

  8. A Methodology for the Development of a Reliability Database for an Advanced Reactor Probabilistic Risk Assessment

    Energy Technology Data Exchange (ETDEWEB)

    Grabaskas, Dave; Brunett, Acacia J.; Bucknor, Matthew

    2016-06-26

    GE Hitachi Nuclear Energy (GEH) and Argonne National Laboratory are currently engaged in a joint effort to modernize and develop probabilistic risk assessment (PRA) techniques for advanced non-light water reactors. At a high level the primary outcome of this project will be the development of next-generation PRA methodologies that will enable risk-informed prioritization of safety- and reliability-focused research and development, while also identifying gaps that may be resolved through additional research. A subset of this effort is the development of a reliability database (RDB) methodology to determine applicable reliability data for inclusion in the quantification of the PRA. The RDB method developed during this project seeks to satisfy the requirements of the Data Analysis element of the ASME/ANS Non-LWR PRA standard. The RDB methodology utilizes a relevancy test to examine reliability data and determine whether it is appropriate to include as part of the reliability database for the PRA. The relevancy test compares three component properties to establish the level of similarity to components examined as part of the PRA. These properties include the component function, the component failure modes, and the environment/boundary conditions of the component. The relevancy test is used to gauge the quality of data found in a variety of sources, such as advanced reactor-specific databases, non-advanced reactor nuclear databases, and non-nuclear databases. The RDB also establishes the integration of expert judgment or separate reliability analysis with past reliability data. This paper provides details on the RDB methodology, and includes an example application of the RDB methodology for determining the reliability of the intermediate heat exchanger of a sodium fast reactor. The example explores a variety of reliability data sources, and assesses their applicability for the PRA of interest through the use of the relevancy test.

  9. Mapping QTL for drought stress-induced premature senescence and maturity in cowpea [Vigna unguiculata (L.) Walp.].

    Science.gov (United States)

    Muchero, Wellington; Ehlers, Jeffrey D; Close, Timothy J; Roberts, Philip A

    2009-03-01

    Cowpea is an important crop for subsistence farmers in arid regions of Africa, Asia, and South America. Efforts to develop cultivars with improved productivity under drought conditions are constrained by lack of molecular markers associated with drought tolerance. Here, we report the mapping of 12 quantitative trait loci (QTL) associated with seedling drought tolerance and maturity in a cowpea recombinant inbred (RIL) population. One hundred and twenty-seven F(8) RILs developed from a cross between IT93K503-1 and CB46 were screened with 62 EcoR1 and Mse1 primer combinations to generate 306 amplified fragment length polymorphisms for use in genetic linkage mapping. The same population was phenotyped for maintenance of stem greenness (stg) and recovery dry weight (rdw) after drought stress in six greenhouse experiments. In field experiments conducted over 3 years, visual ratings and dry weights were used to phenotype drought stress-induced premature senescence in the RIL population. Kruskall-Wallis and multiple-QTL model mapping analysis were used to identify QTL associated with drought response phenotypes. Observed QTL were highly reproducible between stg and rdw under greenhouse conditions. Field studies confirmed all ten drought-response QTL observed under greenhouse conditions. Regions harboring drought-related QTL were observed on linkage groups 1, 2, 3, 5, 6, 7, 9, and 10 accounting for between 4.7 and 24.2% of the phenotypic variance (R(2)). Further, two QTL for maturity (R(2) = 14.4-28.9% and R(2) = 11.7-25.2%) mapped on linkage groups 7 and 8 separately from drought-related QTL. These results provide a platform for identification of genetic determinants of seedling drought tolerance in cowpea.

  10. PHASE I MATERIALS PROPERTY DATABASE DEVELOPMENT FOR ASME CODES AND STANDARDS

    Energy Technology Data Exchange (ETDEWEB)

    Ren, Weiju [ORNL; Lin, Lianshan [ORNL

    2013-01-01

    To support the ASME Boiler and Pressure Vessel Codes and Standard (BPVC) in modern information era, development of a web-based materials property database is initiated under the supervision of ASME Committee on Materials. To achieve efficiency, the project heavily draws upon experience from development of the Gen IV Materials Handbook and the Nuclear System Materials Handbook. The effort is divided into two phases. Phase I is planned to deliver a materials data file warehouse that offers a depository for various files containing raw data and background information, and Phase II will provide a relational digital database that provides advanced features facilitating digital data processing and management. Population of the database will start with materials property data for nuclear applications and expand to data covering the entire ASME Code and Standards including the piping codes as the database structure is continuously optimized. The ultimate goal of the effort is to establish a sound cyber infrastructure that support ASME Codes and Standards development and maintenance.

  11. Development of the Lymphoma Enterprise Architecture Database: a caBIG Silver level compliant system.

    Science.gov (United States)

    Huang, Taoying; Shenoy, Pareen J; Sinha, Rajni; Graiser, Michael; Bumpers, Kevin W; Flowers, Christopher R

    2009-04-03

    Lymphomas are the fifth most common cancer in United States with numerous histological subtypes. Integrating existing clinical information on lymphoma patients provides a platform for understanding biological variability in presentation and treatment response and aids development of novel therapies. We developed a cancer Biomedical Informatics Grid (caBIG) Silver level compliant lymphoma database, called the Lymphoma Enterprise Architecture Data-system (LEAD), which integrates the pathology, pharmacy, laboratory, cancer registry, clinical trials, and clinical data from institutional databases. We utilized the Cancer Common Ontological Representation Environment Software Development Kit (caCORE SDK) provided by National Cancer Institute's Center for Bioinformatics to establish the LEAD platform for data management. The caCORE SDK generated system utilizes an n-tier architecture with open Application Programming Interfaces, controlled vocabularies, and registered metadata to achieve semantic integration across multiple cancer databases. We demonstrated that the data elements and structures within LEAD could be used to manage clinical research data from phase 1 clinical trials, cohort studies, and registry data from the Surveillance Epidemiology and End Results database. This work provides a clear example of how semantic technologies from caBIG can be applied to support a wide range of clinical and research tasks, and integrate data from disparate systems into a single architecture. This illustrates the central importance of caBIG to the management of clinical and biological data.

  12. Development of the Lymphoma Enterprise Architecture Database: A caBIG(TM Silver Level Compliant System

    Directory of Open Access Journals (Sweden)

    Taoying Huang

    2009-04-01

    Full Text Available Lymphomas are the fifth most common cancer in United States with numerous histological subtypes. Integrating existing clinical information on lymphoma patients provides a platform for understanding biological variability in presentation and treatment response and aids development of novel therapies. We developed a cancer Biomedical Informatics Grid™ (caBIG™ Silver level compliant lymphoma database, called the Lymphoma Enterprise Architecture Data-system™ (LEAD™, which integrates the pathology, pharmacy, laboratory, cancer registry, clinical trials, and clinical data from institutional databases. We utilized the Cancer Common Ontological Representation Environment Software Development Kit (caCORE SDK provided by National Cancer Institute’s Center for Bioinformatics to establish the LEAD™ platform for data management. The caCORE SDK generated system utilizes an n-tier architecture with open Application Programming Interfaces, controlled vocabularies, and registered metadata to achieve semantic integration across multiple cancer databases. We demonstrated that the data elements and structures within LEAD™ could be used to manage clinical research data from phase 1 clinical trials, cohort studies, and registry data from the Surveillance Epidemiology and End Results database. This work provides a clear example of how semantic technologies from caBIG™ can be applied to support a wide range of clinical and research tasks, and integrate data from disparate systems into a single architecture. This illustrates the central importance of caBIG™ to the management of clinical and biological data.

  13. Development of the Lymphoma Enterprise Architecture Database: A caBIG(TM Silver Level Compliant System

    Directory of Open Access Journals (Sweden)

    Taoying Huang

    2009-01-01

    Full Text Available Lymphomas are the fifth most common cancer in United States with numerous histological subtypes. Integrating existing clinical information on lymphoma patients provides a platform for understanding biological variability in presentation and treatment response and aids development of novel therapies. We developed a cancer Biomedical Informatics Grid™ (caBIG™ Silver level compliant lymphoma database, called the Lymphoma Enterprise Architecture Data-system™ (LEAD™, which integrates the pathology, pharmacy, laboratory, cancer registry, clinical trials, and clinical data from institutional databases. We utilized the Cancer Common Ontological Representation Environment Software Development Kit (caCORE SDK provided by National Cancer Institute’s Center for Bioinformatics to establish the LEAD™ platform for data management. The caCORE SDK generated system utilizes an n-tier architecture with open Application Programming Interfaces, controlled vocabularies, and registered metadata to achieve semantic integration across multiple cancer databases. We demonstrated that the data elements and structures within LEAD™ could be used to manage clinical research data from phase 1 clinical trials, cohort studies, and registry data from the Surveillance Epidemiology and End Results database. This work provides a clear example of how semantic technologies from caBIG™ can be applied to support a wide range of clinical and research tasks, and integrate data from disparate systems into a single architecture. This illustrates the central importance of caBIG™ to the management of clinical and biological data.

  14. Development of the Lymphoma Enterprise Architecture Database: A caBIG(tm) Silver level compliant System

    Science.gov (United States)

    Huang, Taoying; Shenoy, Pareen J.; Sinha, Rajni; Graiser, Michael; Bumpers, Kevin W.; Flowers, Christopher R.

    2009-01-01

    Lymphomas are the fifth most common cancer in United States with numerous histological subtypes. Integrating existing clinical information on lymphoma patients provides a platform for understanding biological variability in presentation and treatment response and aids development of novel therapies. We developed a cancer Biomedical Informatics Grid™ (caBIG™) Silver level compliant lymphoma database, called the Lymphoma Enterprise Architecture Data-system™ (LEAD™), which integrates the pathology, pharmacy, laboratory, cancer registry, clinical trials, and clinical data from institutional databases. We utilized the Cancer Common Ontological Representation Environment Software Development Kit (caCORE SDK) provided by National Cancer Institute’s Center for Bioinformatics to establish the LEAD™ platform for data management. The caCORE SDK generated system utilizes an n-tier architecture with open Application Programming Interfaces, controlled vocabularies, and registered metadata to achieve semantic integration across multiple cancer databases. We demonstrated that the data elements and structures within LEAD™ could be used to manage clinical research data from phase 1 clinical trials, cohort studies, and registry data from the Surveillance Epidemiology and End Results database. This work provides a clear example of how semantic technologies from caBIG™ can be applied to support a wide range of clinical and research tasks, and integrate data from disparate systems into a single architecture. This illustrates the central importance of caBIG™ to the management of clinical and biological data. PMID:19492074

  15. The principle and main structure design on national database of poverty, environment, and development in China

    Science.gov (United States)

    Wang, Yingjie; Feng, Xiangfeng; Yu, Zhuoyuan; Cui, Jing

    2009-07-01

    Poverty is listed as the one of eight "Millennium Development Goals" by UN Summit. From 1978 to 2004, rural poverty population in China is cut to 26.1 million from 250 million. In order to support the decision maker to make nice planning in elimination of poverty and promotion of regional sustainable development in China, the GIS based systemic and comprehensive database for poverty, environment and development is proposed and designed in the paper. Additionally, the design principle and main content of the database is discussed by utilization modern technology, such as spatialtemporal and tree-ring data models for data structuring and coding, in order to represent current poverty status, spatial distribution and temporal variations, and to explore the relationship among poverty, environment and development ultimately.

  16. Maize microarray annotation database

    Directory of Open Access Journals (Sweden)

    Berger Dave K

    2011-10-01

    Full Text Available Abstract Background Microarray technology has matured over the past fifteen years into a cost-effective solution with established data analysis protocols for global gene expression profiling. The Agilent-016047 maize 44 K microarray was custom-designed from EST sequences, but only reporter sequences with EST accession numbers are publicly available. The following information is lacking: (a reporter - gene model match, (b number of reporters per gene model, (c potential for cross hybridization, (d sense/antisense orientation of reporters, (e position of reporter on B73 genome sequence (for eQTL studies, and (f functional annotations of genes represented by reporters. To address this, we developed a strategy to annotate the Agilent-016047 maize microarray, and built a publicly accessible annotation database. Description Genomic annotation of the 42,034 reporters on the Agilent-016047 maize microarray was based on BLASTN results of the 60-mer reporter sequences and their corresponding ESTs against the maize B73 RefGen v2 "Working Gene Set" (WGS predicted transcripts and the genome sequence. The agreement between the EST, WGS transcript and gDNA BLASTN results were used to assign the reporters into six genomic annotation groups. These annotation groups were: (i "annotation by sense gene model" (23,668 reporters, (ii "annotation by antisense gene model" (4,330; (iii "annotation by gDNA" without a WGS transcript hit (1,549; (iv "annotation by EST", in which case the EST from which the reporter was designed, but not the reporter itself, has a WGS transcript hit (3,390; (v "ambiguous annotation" (2,608; and (vi "inconclusive annotation" (6,489. Functional annotations of reporters were obtained by BLASTX and Blast2GO analysis of corresponding WGS transcripts against GenBank. The annotations are available in the Maize Microarray Annotation Database http://MaizeArrayAnnot.bi.up.ac.za/, as well as through a GBrowse annotation file that can be uploaded to

  17. Developing a Comprehensive Database Management System for Organization and Evaluation of Mammography Datasets

    OpenAIRE

    Wu, Yirong; Rubin, Daniel L.; WOODS, RYAN W.; Elezaby, Mai; Burnside, Elizabeth S.

    2014-01-01

    We aimed to design and develop a comprehensive mammography database system (CMDB) to collect clinical datasets for outcome assessment and development of decision support tools. A Health Insurance Portability and Accountability Act (HIPAA) compliant CMDB was created to store multi-relational datasets of demographic risk factors and mammogram results using the Breast Imaging Reporting and Data System (BI-RADS) lexicon. The CMDB collected both biopsy pathology outcomes, in a breast pathology lex...

  18. Standards Development for the U.S. National Geologic Map Database

    Science.gov (United States)

    Soller, D. R.; Berg, T. M.; Stamm, N. R.

    2005-12-01

    The U.S. Geological Survey and the Nation's state geological surveys (under authority of the Association of American State Geologists) are mandated by Congress to provide a National Geologic Map Database (NGMDB) of standardized geoscience information that can be used to address societal issues and improve our base of scientific knowledge. Over the past decade, the NGMDB project has addressed its mandate by providing: 1) basic information and services that enable users to find available geoscience information; 2) a venue for development of community-based standards that are promoting broader public use of geoscience map information and more effective interoperability among the Nation's geological surveys; and 3) a research and development environment in which we are building a distributed database system to archive and serve the Nation's geologic map information. The NGMDB is addressing its mission in an incremental fashion, by building "support" databases and standards, and by working toward the long-term goal of the distributed system. Products currently available to serve the geoscience community and the general public are: the U.S. Geologic Names Lexicon ("GEOLEX"), which is a standard reference for the Nation's stratigraphic nomenclature; the Geoscience Map Catalog and Image Library, which helps people find and view 70,000 published geoscience maps and related products; and various standards, which are the subject of this paper. In cooperation with other U.S. and Canadian agencies, and with the IUGS Commission for the Management and Application of Geoscience Information ("CGI"), the NGMDB project is defining standards that include: a science terminology; a conceptual data model; a physical implementation of the data model in ArcGIS; a FGDC-endorsed standard for map symbols and patterns and for descriptions of locational accuracy of geologic features in the field; and a GML-based exchange standard to promote interoperability among data providers to the NGMDB

  19. Microsatellite mapping of QTL affecting growth, feed consumption, egg production, tonic immobility and body temperature of Japanese quail

    Directory of Open Access Journals (Sweden)

    Gourichon David

    2005-06-01

    Full Text Available Abstract Background The Japanese quail (Coturnix japonica is both an animal model in biology and a commercial bird for egg and meat production. Modern research developments with this bird, however, have been slowed down by the limited information that is available on the genetics of the Japanese quail. Recently, quail genetic maps with microsatellites and AFLP have been produced which open the way to comparative works with the chicken (Gallus gallus, and to QTL detection for a variety of traits. The purpose of this work was to detect for the first time QTL for commercial traits and for more basic characters in an F2 experiment with 434 female quail, and to compare the nature and the position of the detected QTL with those from the first chicken genome scans carried out during the last few years. Results Genome-wide significant or suggestive QTL were found for clutch length, body weight and feed intake on CJA01, age at first egg and egg number on CJA06, and eggshell weight and residual feed intake on CJA20, with possible pleiotropy for the QTL affecting body weight and feed intake, and egg number and age at first egg. A suggestive QTL was found for tonic immobility on CJA01, and chromosome-wide significant QTL for body temperature were detected on CJA01 and CJA03. Other chromosome-wide significant QTL were found on CJA02, CJA05, CJA09 and CJA14. Parent-of-origin effects were found for QTL for body weight and feed intake on CJA01. Conclusion Despite its limited length, the first quail microsatellite map was useful to detect new QTL for rarely reported traits, like residual feed intake, and to help establish some correspondence between the QTL for feed intake, body weight and tonic immobility detected in the present work and those reported on GGA01 in the chicken. Further comparative work is now possible in order to better estimate and understand the genetic similarities and differences of these two Phasianidae species.

  20. [The Development and Application of the Orthopaedics Implants Failure Database Software Based on WEB].

    Science.gov (United States)

    Huang, Jiahua; Zhou, Hai; Zhang, Binbin; Ding, Biao

    2015-09-01

    This article develops a new failure database software for orthopaedics implants based on WEB. The software is based on B/S mode, ASP dynamic web technology is used as its main development language to achieve data interactivity, Microsoft Access is used to create a database, these mature technologies make the software extend function or upgrade easily. In this article, the design and development idea of the software, the software working process and functions as well as relative technical features are presented. With this software, we can store many different types of the fault events of orthopaedics implants, the failure data can be statistically analyzed, and in the macroscopic view, it can be used to evaluate the reliability of orthopaedics implants and operations, it also can ultimately guide the doctors to improve the clinical treatment level.

  1. High-throughput phenotyping to detect drought tolerance QTL in wild barley introgression lines.

    Directory of Open Access Journals (Sweden)

    Nora Honsdorf

    Full Text Available Drought is one of the most severe stresses, endangering crop yields worldwide. In order to select drought tolerant genotypes, access to exotic germplasm and efficient phenotyping protocols are needed. In this study the high-throughput phenotyping platform "The Plant Accelerator", Adelaide, Australia, was used to screen a set of 47 juvenile (six week old wild barley introgression lines (S42ILs for drought stress responses. The kinetics of growth development was evaluated under early drought stress and well watered treatments. High correlation (r=0.98 between image based biomass estimates and actual biomass was demonstrated, and the suitability of the system to accurately and non-destructively estimate biomass was validated. Subsequently, quantitative trait loci (QTL were located, which contributed to the genetic control of growth under drought stress. In total, 44 QTL for eleven out of 14 investigated traits were mapped, which for example controlled growth rate and water use efficiency. The correspondence of those QTL with QTL previously identified in field trials is shown. For instance, six out of eight QTL controlling plant height were also found in previous field and glasshouse studies with the same introgression lines. This indicates that phenotyping juvenile plants may assist in predicting adult plant performance. In addition, favorable wild barley alleles for growth and biomass parameters were detected, for instance, a QTL that increased biomass by approximately 36%. In particular, introgression line S42IL-121 revealed improved growth under drought stress compared to the control Scarlett. The introgression line showed a similar behavior in previous field experiments, indicating that S42IL-121 may be an attractive donor for breeding of drought tolerant barley cultivars.

  2. High-throughput phenotyping to detect drought tolerance QTL in wild barley introgression lines

    KAUST Repository

    Honsdorf, Nora

    2014-05-13

    Drought is one of the most severe stresses, endangering crop yields worldwide. In order to select drought tolerant genotypes, access to exotic germplasm and efficient phenotyping protocols are needed. In this study the high-throughput phenotyping platform "The Plant Accelerator", Adelaide, Australia, was used to screen a set of 47 juvenile (six week old) wild barley introgression lines (S42ILs) for drought stress responses. The kinetics of growth development was evaluated under early drought stress and well watered treatments. High correlation (r = 0.98) between image based biomass estimates and actual biomass was demonstrated, and the suitability of the system to accurately and non-destructively estimate biomass was validated. Subsequently, quantitative trait loci (QTL) were located, which contributed to the genetic control of growth under drought stress. In total, 44 QTL for eleven out of 14 investigated traits were mapped, which for example controlled growth rate and water use efficiency. The correspondence of those QTL with QTL previously identified in field trials is shown. For instance, six out of eight QTL controlling plant height were also found in previous field and glasshouse studies with the same introgression lines. This indicates that phenotyping juvenile plants may assist in predicting adult plant performance. In addition, favorable wild barley alleles for growth and biomass parameters were detected, for instance, a QTL that increased biomass by approximately 36%. In particular, introgression line S42IL-121 revealed improved growth under drought stress compared to the control Scarlett. The introgression line showed a similar behavior in previous field experiments, indicating that S42IL-121 may be an attractive donor for breeding of drought tolerant barley cultivars. © 2014 Honsdorf et al.

  3. Dynamic QTL analysis for fruit lycopene content and total soluble solid content in a Solanum lycopersicum x S. pimpinellifolium cross.

    Science.gov (United States)

    Sun, Y D; Liang, Y; Wu, J M; Li, Y Z; Cui, X; Qin, L

    2012-10-11

    Fruit lycopene content and total soluble solid content are important factors determining fruit quality of tomatoes; however, the dynamic quantitative trait loci (QTL) controlling lycopene and soluble solid content have not been well studied. We mapped the chromosomal regions controlling these traits in different periods in F(2:3) families derived from a cross between the domestic and wild tomato species Solanum lycopersicum and S. pimpinellifolium. Fifteen QTLs for lycopene and soluble solid content and other related traits analyzed at three different fruit ripening stages were detected with a composite interval mapping method. These QTLs explained 7-33% of the individual phenotypic variation. QTLs detected in the color-changing period were different from those detected in the other two periods. On chromosome 1, the soluble solid content QTL was located in the same region during the color-changing and full-ripe periods. On chromosome 4, the same QTL for lycopene content was found during the color-changing and full-ripe periods. The QTL for lycopene content on chromosome 4 co-located with the QTL for soluble solid content during the full-ripe period. Co-location of lycopene content QTL and soluble solid content QTLs may be due to pleiotropic effects of a single gene or a cluster of genes via physiological relationships among traits. On chromosome 9, the same two QTLs for lycopene content at two different fruit ripening periods may reflect genes controlling lycopene content that are always expressed in tomato fruit development.

  4. Development of a web database portfolio system with PACS connectivity for undergraduate health education and continuing professional development.

    Science.gov (United States)

    Ng, Curtise K C; White, Peter; McKay, Janice C

    2009-04-01

    Increasingly, the use of web database portfolio systems is noted in medical and health education, and for continuing professional development (CPD). However, the functions of existing systems are not always aligned with the corresponding pedagogy and hence reflection is often lost. This paper presents the development of a tailored web database portfolio system with Picture Archiving and Communication System (PACS) connectivity, which is based on the portfolio pedagogy. Following a pre-determined portfolio framework, a system model with the components of web, database and mail servers, server side scripts, and a Query/Retrieve (Q/R) broker for conversion between Hypertext Transfer Protocol (HTTP) requests and Q/R service class of Digital Imaging and Communication in Medicine (DICOM) standard, is proposed. The system was piloted with seventy-seven volunteers. A tailored web database portfolio system (http://radep.hti.polyu.edu.hk) was developed. Technological arrangements for reinforcing portfolio pedagogy include popup windows (reminders) with guidelines and probing questions of 'collect', 'select' and 'reflect' on evidence of development/experience, limitation in the number of files (evidence) to be uploaded, the 'Evidence Insertion' functionality to link the individual uploaded artifacts with reflective writing, capability to accommodate diversity of contents and convenient interfaces for reviewing portfolios and communication. Evidence to date suggests the system supports users to build their portfolios with sound hypertext reflection under a facilitator's guidance, and with reviewers to monitor students' progress providing feedback and comments online in a programme-wide situation.

  5. Data-driven assessment of eQTL mapping methods

    Directory of Open Access Journals (Sweden)

    Schughart Klaus

    2010-09-01

    Full Text Available Abstract Background The analysis of expression quantitative trait loci (eQTL is a potentially powerful way to detect transcriptional regulatory relationships at the genomic scale. However, eQTL data sets often go underexploited because legacy QTL methods are used to map the relationship between the expression trait and genotype. Often these methods are inappropriate for complex traits such as gene expression, particularly in the case of epistasis. Results Here we compare legacy QTL mapping methods with several modern multi-locus methods and evaluate their ability to produce eQTL that agree with independent external data in a systematic way. We found that the modern multi-locus methods (Random Forests, sparse partial least squares, lasso, and elastic net clearly outperformed the legacy QTL methods (Haley-Knott regression and composite interval mapping in terms of biological relevance of the mapped eQTL. In particular, we found that our new approach, based on Random Forests, showed superior performance among the multi-locus methods. Conclusions Benchmarks based on the recapitulation of experimental findings provide valuable insight when selecting the appropriate eQTL mapping method. Our battery of tests suggests that Random Forests map eQTL that are more likely to be validated by independent data, when compared to competing multi-locus and legacy eQTL mapping methods.

  6. Development of a 2001 National Land Cover Database for the United States

    Science.gov (United States)

    Homer, Collin G.; Huang, Chengquan; Yang, Limin; Wylie, Bruce K.; Coan, Michael

    2004-01-01

    Multi-Resolution Land Characterization 2001 (MRLC 2001) is a second-generation Federal consortium designed to create an updated pool of nation-wide Landsat 5 and 7 imagery and derive a second-generation National Land Cover Database (NLCD 2001). The objectives of this multi-layer, multi-source database are two fold: first, to provide consistent land cover for all 50 States, and second, to provide a data framework which allows flexibility in developing and applying each independent data component to a wide variety of other applications. Components in the database include the following: (1) normalized imagery for three time periods per path/row, (2) ancillary data, including a 30 m Digital Elevation Model (DEM) derived into slope, aspect and slope position, (3) perpixel estimates of percent imperviousness and percent tree canopy, (4) 29 classes of land cover data derived from the imagery, ancillary data, and derivatives, (5) classification rules, confidence estimates, and metadata from the land cover classification. This database is now being developed using a Mapping Zone approach, with 66 Zones in the continental United States and 23 Zones in Alaska. Results from three initial mapping Zones show single-pixel land cover accuracies ranging from 73 to 77 percent, imperviousness accuracies ranging from 83 to 91 percent, tree canopy accuracies ranging from 78 to 93 percent, and an estimated 50 percent increase in mapping efficiency over previous methods. The database has now entered the production phase and is being created using extensive partnering in the Federal government with planned completion by 2006.

  7. Development of an enterprise-wide clinical data repository: merging multiple legacy databases.

    Science.gov (United States)

    Scully, K W; Pates, R D; Desper, G S; Connors, A F; Harrell, F E; Pieper, K S; Hannan, R L; Reynolds, R E

    1997-01-01

    We describe the development of a clinical data repository whose core consists of four years of inpatient administrative and billing data from the mainframe legacy systems of the University of Virginia Health System (UVAHS). To these data we have linked a cardiac surgery clinical database and our physician billing data (inpatient and outpatient). Other databases will be merged in the future. A relational database management system (Sybase) running on a dedicated IBM RS/6000 minicomputer was employed to assemble 2.5 Gigabytes of core data describing approximately 100,000 hospital admissions over the four year period. To enable convenient data queries, the system has been equipped with a custom-built WWW user interface, which generates Structured Query Language (SQL) automatically. We illustrate the rapid reporting capabilities of the resulting system with reference to patients undergoing coronary artery bypass graft surgery (CABG). We conclude that this information system: a) constitutes a convenient and low-cost method to increase data availability across the UVAHS; b) provides clinicians with a tool for surveillance of patient care and outcomes; c) forms the core of a comprehensive database from which clinical research may proceed; d) provides a flexible interface empowering a wide variety of clinical departments to share and enrich their own clinical data.

  8. Development of Vision Based Multiview Gait Recognition System with MMUGait Database

    Directory of Open Access Journals (Sweden)

    Hu Ng

    2014-01-01

    Full Text Available This paper describes the acquisition setup and development of a new gait database, MMUGait. This database consists of 82 subjects walking under normal condition and 19 subjects walking with 11 covariate factors, which were captured under two views. This paper also proposes a multiview model-based gait recognition system with joint detection approach that performs well under different walking trajectories and covariate factors, which include self-occluded or external occluded silhouettes. In the proposed system, the process begins by enhancing the human silhouette to remove the artifacts. Next, the width and height of the body are obtained. Subsequently, the joint angular trajectories are determined once the body joints are automatically detected. Lastly, crotch height and step-size of the walking subject are determined. The extracted features are smoothened by Gaussian filter to eliminate the effect of outliers. The extracted features are normalized with linear scaling, which is followed by feature selection prior to the classification process. The classification experiments carried out on MMUGait database were benchmarked against the SOTON Small DB from University of Southampton. Results showed correct classification rate above 90% for all the databases. The proposed approach is found to outperform other approaches on SOTON Small DB in most cases.

  9. Atlantic Canada's energy research and development website and database

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2005-07-01

    Petroleum Research Atlantic Canada maintains a website devoted to energy research and development in Atlantic Canada. The site can be viewed on the world wide web at www.energyresearch.ca. It includes a searchable database with information about researchers in Nova Scotia, their projects and published materials on issues related to hydrocarbons, alternative energy technologies, energy efficiency, climate change, environmental impacts and policy. The website also includes links to research funding agencies, external related databases and related energy organizations around the world. Nova Scotia-based users are invited to submit their academic, private or public research to the site. Before being uploaded into the database, a site administrator reviews and processes all new information. Users are asked to identify their areas of interest according to the following research categories: alternative or renewable energy technologies; climate change; coal; computer applications; economics; energy efficiency; environmental impacts; geology; geomatics; geophysics; health and safety; human factors; hydrocarbons; meteorology and oceanology (metocean) activities; petroleum operations in deep and shallow waters; policy; and power generation and supply. The database can be searched 5 ways according to topic, researchers, publication, projects or funding agency. refs., tabs., figs.

  10. Enhancing Disaster Management: Development of a Spatial Database of Day Care Centers in the USA

    Directory of Open Access Journals (Sweden)

    Nagendra Singh

    2015-07-01

    Full Text Available Children under the age of five constitute around 7% of the total U.S. population, and represent a segment of the population that is totally dependent on others for day-to-day activities. A significant proportion of this population spends time in some form of day care arrangement while their parents are away from home. Accounting for those children during emergencies is of high priority, which requires a broad understanding of the locations of such day care centers. As concentrations of at risk population, the spatial location of day care centers is critical for any type of emergency preparedness and response (EPR. However, until recently, the U.S. emergency preparedness and response community did not have access to a comprehensive spatial database of day care centers at the national scale. This paper describes an approach for the development of the first comprehensive spatial database of day care center locations throughout the U.S. utilizing a variety of data harvesting techniques to integrate information from widely disparate data sources followed by geolocating for spatial precision. In the context of disaster management, such spatially refined demographic databases hold tremendous potential for improving high-resolution population distribution and dynamics models and databases.

  11. [Dynamic QTL and correlated characters of tomato soluble solid content.].

    Science.gov (United States)

    Jia, Jun-Zhong; Tian, Li-Ping; Xue, Lin; Wei, Yi-Nong

    2010-10-01

    Two hundred and six F2:3 families from the cross between TD22 and HT-1-1-1-1 were used for dynamic QTL research of tomato soluble solid content and correlative traits, and correlation analysis of soluble solid content (SSC) with fruit weight (FW), fruit shape index (FSI), soluble sugar, vitamin C (VC), and organic acid at three different development stages. The results showed that there were differences in QTL loci for soluble solid content during the three stages of tomato fruit development. Four and eight QTLs were detected in green ripe stage and red ripe stage, respectively. These QTLs showed dynamic changes, and two markers LEaat006 and Tomato|TC162363 were detected in two stages, which might be useful in molecular-marker assisted selection (MAS). The result also showed that there was extremely significant difference in SSC at the three different stages, and its main correlative traits were different at different stages. Soluble solid content was positively correlated with soluble sugar, but negatively correlated with FW at green ripe stage; SSC was positively correlated with soluble sugar and organic acid at yellow ripe stage; SSC was positively correlated with soluble sugar and organic acid, but negatively correlated with fruit weight at red ripe stage. Based on correlation analysis of these traits, linear regression model was constructed. Non-tested varieties were used to test the fitness, and the result showed that it is well fitted, and the fitness is above 95%.

  12. FY11 Development of Fully Coupled Repository THCM Simulation Tools Report: Thermodynamic Database Development, with Emphasis on Complex Clay Minerals

    Energy Technology Data Exchange (ETDEWEB)

    Wolery, Thomas J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Tayne, Andrew [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Jove-Colon, Carlos F. [Sandia National Lab. (SNL-CA), Livermore, CA (United States)

    2011-07-29

    Thermodynamic data are essential for understanding and evaluating geochemical processes, as by speciation-solubility calculations, reaction -path modeling, or reactive transport simulation. These data are required to evaluate both equilibrium states and the kinetic approach to such states (via the affinity term in rate laws). The development of thermodynamic databases for these purposes has a long history in geochemistry (e.g., Garrels and Christ, 1965; Helgeson et al., 1969; Helgeson et al., 1978, Johnson et al., 1992; Robie and Hemingway, 1995), paralleled by related and applicable work in the larger scientific community (e.g., Wagman et al., 1982, 1989; Cox et al., 1989; Barin and Platzki, 1995; Binneweis and Milke, 1999). The Yucca Mountain Project developed two qualified thermodynamic databases for to model geochemical processes, including ones involving repository components such as spent fuel. The first of the two (BSC, 2007a) was for systems containing dilute aqueous solutions only, the other (BSC, 2007b) for systems involving concentrated aqueous solutions and incorporating a model for such based on Pitzer’s (1991) equations . A 25°C-only database with similarities to the latter was also developed for WIPP (cf. Xiong, 2005). The YMP dilute systems database is widely used in the geochemistry community for a variety of applications involving rock/water interactions. The purpose of the present task is to improve these databases for work on the Used Fuel Disposition Project and maintain some semblance of order that will support qualification in support of the development of future underground high level nuclear waste disposal.

  13. Development of an Expanded, High Reliability Cost and Performance Database for In Situ Remediation Technologies

    Science.gov (United States)

    2016-03-01

    large investment in groundwater remediation technologies more effective, end-users need quantitative, accurate, and reliable performance and cost ... technologies . The overall objective of this work was to develop a comprehensive remediation performance and cost database. N/A U U U UU 42 Travis...end-users need quantitative, accurate, and reliable performance and cost data for commonly used remediation technologies . While the data from an

  14. Development of High-speed Machining Database with Case-based Reasoning

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    Applying high-speed machining technology in shop floor has many benefits, such as manufacturing more accurate parts with better surface finishes. The selection of the appropriate machining parameters plays a very important role in the implementation of high-speed machining technology. The case-based reasoning is used in the developing of high-speed machining database to overcome the shortage of available high-speed cutting parameters in machining data handbooks and shop floors. The high-speed machining data...

  15. Developing Molecular Interaction Database and Searching for Similar Pathways (MOLECULAR BIOLOGY AND INFORMATION-Biological Information Science)

    OpenAIRE

    Kawashima, Shuichi; Katayama, Toshiaki; Kanehisa, Minoru

    1998-01-01

    We have developed a database named BRITE, which contains knowledge of interacting molecules and/or genes concering cell cycle and early development. Here, we report an overview of the database and the method of automatic search for functionally common sub-pathways between two biological pathways in BRITE.

  16. A national, geographic database of CDC-funded HIV prevention services: development challenges and potential applications

    Directory of Open Access Journals (Sweden)

    Fogarty Kieran J

    2005-11-01

    Full Text Available Abstract Background From 2000–2002, the Centers for Disease Control and Prevention (CDC funded a study that was designed to improve the information available to program planners about the geographic distribution of CDC-funded HIV prevention services provided by community-based organizations (CBOs. Program managers at CDC recognized the potential of a geographic information system (GIS to organize and analyze information about HIV prevention services and they made GIS a critical component of the study design. The primary objective of this study was to construct a national, geographically-referenced database of HIV prevention services provided by CDC-funded CBOs. We designed a survey instrument to collect information about the geographic service areas where CBOs provided HIV prevention services, then collected data from CBOs that received CDC funding for these services during fiscal year 2000. We developed a GIS database to link questionnaire responses with GIS map layers in a manner that would incorporate overlapping geographies, risk populations and prevention services. We collected geographic service area data in two formats: 1 geopolitical boundaries and 2 geographic distance. Results The survey response rate was 70.3%, i.e. 1,020 of 1,450 community-based organizations responded. The number of HIV prevention programs administered by each CBO ranged from 1 to 23. The survey provided information about 3,028 prevention programs, including descriptions of intervention types, risk populations, race and ethnicity, CBO location and geographic service area. We incorporated this information into a large GIS database, the HIV Prevention Services Database. The use of geopolitical boundaries provided more accurate results than geographic distance. The use of a reference map with the questionnaire improved completeness, accuracy and precision of service area data. Conclusion The survey instrument design and database development procedures that we used

  17. Development and application of indices using large volcanic databases for a global hazard and risk assessment

    Science.gov (United States)

    Brown, Sarah; Auker, Melanie; Cottrell, Elizabeth; Delgado Granados, Hugo; Loughlin, Sue; Ortiz Guerrero, Natalie; Sparks, Steve; Vye-Brown, Charlotte; Taskforce, Indices

    2015-04-01

    The Global Volcano Model (GVM) and IAVCEI were commissioned by the United Nations Office for Disaster Risk Reduction to produce a global assessment of volcanic hazard and risk for the Global Assessment Report 2015 (GAR15). This involved presenting both an introduction to volcanology and developing indices to assess hazard and risk on a global scale. To this end two open-access databases were of utmost importance: the Global Volcanism Program's Volcanoes of the World (http://www.volcano.si.edu) and the Large Magnitude Explosive Volcanic Eruptions database (LaMEVE; http://www.bgs.ac.uk/vogripa/). Indices were developed to enable a relative global assessment cognisant of data uncertainty and availability to broadly identify how hazard and risk varies around the world, the extent of monitoring and strengths and limitations in knowledge. The accessibility of both physical (e.g. volcano, eruption) and social data is crucial to our understanding of past behaviour, forecasting probable future behaviour and the potential impacts on communities. Such data is regionally highly variable and the eruption record worsens back in time. The Volcanic Hazard Index (VHI) was designed to quantify hazard levels globally, based on the Holocene eruption record. Vulnerability to eruptions was measured using the Population Exposure Index, which weights the population within 100 km of volcanoes by area and historical fatalities. The combination of these indices provides an indicator of population risk at individual volcanoes. The VHI was also combined with the total populations living within 30 km of volcanoes in each country to develop an understanding of the global distribution of volcano threat, and to rank countries by this measure. About half of the historically active volcanoes have insufficient information to adequately calculate VHI and these are highlighted as requiring future research. A database currently in development, GLOVOREMID, collates monitoring data to understand

  18. QTL Information Table: 468 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Morphological trait Root Root / Shoot Ratio of Dry Weight RFLP C)Interval DHL ZYQ8 ...Jingxi 17 B RG653 RG433 pha Xu, J.C., Li, J.Z., Zheng, X.W., Zou, L.X., and Zhu, L.H. (2001). QTL mapping of the root traits in rice seedling. Yi Chuan Xue Bao 28, 433-438. ...

  19. QTL Information Table: 40 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available OSJNBb0074M06 RMw357 RMw353 C80 C1677 pha Wan, X.Y., Wan, J.M., Jiang, L., Wang, J.K., Zhai, H.Q., Weng, J.F., Wang,... H.L., Lei, C.L., Wang, J.L., Zhang, X., Cheng, Z.J., and Guo, X.P. (2006). QTL analysis for rice gr

  20. QTL Information Table: 677 [Q-TARO

    Lifescience Database Archive (English)

    Full Text Available Gw2 Morphological trait Seed Grain weight Mixture A)Physical F2 WY3 Fengaizhan-1 AP005004 W024 W004 pha Song, X.J., Huang, W., Shi, M., Zhu, M.Z., and Lin, H.X. (2007). A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nat Genet 39, 623-630. ...

  1. Design and development for updating national 1:50,000 topographic databases in China

    Directory of Open Access Journals (Sweden)

    CHEN Jun

    2010-02-01

    Full Text Available 1.1 Objective Map databases are irreplaceable national treasure of immense importance. Their currency referring to its consistency with respect to the real world plays a critical role in its value and applications. The continuous updating of map databases at 1:50,000 scales is a massive and difficult task for larger countries of the size of more than several million’s kilometer squares. This paper presents the research and technological development to support the national map updating at 1:50,000 scales in China, including the development of updating models and methods, production tools and systems for large-scale and rapid updating, as well as the design and implementation of the continuous updating workflow. 1.2 Methodology The updating of map databases is different than its original creation, and a number of new problems should be solved, such as change detection using latest multi-source data, incremental object revision and relation amendment. The methodology of this paper consists of the following three parts: 1 Examine the four key aspects of map database updating and develop basic updating models/methods, such as currentness-oriented integration of multi-resource data, completeness-based incremental change detection in the context of existing datasets, consistency-aware processing of updated data sets, and user-friendly propagation and services of updates. 2 Design and develop specific software tools and packages to support the large-scale updating production with high resolution imagery and large-scale data generalization, such as map generalization, GIS-supported change interpretation from imagery, DEM interpolation, image matching-based orthophoto generation, data control at different levels. 3 Design a national 1:50,000 databases updating strategy and its production workflow, including a full coverage updating pattern characterized by all element topographic data modeling, change detection in all related areas, and whole process

  2. Analysis of rice blast resistance genes by QTL mapping

    Institute of Scientific and Technical Information of China (English)

    XU Jichen; WANG Jiulin; LING Zhongzhuan; ZHU Lihuang

    2004-01-01

    Resistance to rice blast pathogen mostly shows a quantitative trait controlled by several minor genes. Its complexity and the mutable characteristic of rice blast isolates both hinder the development of the blast resistance research. The article here tried to explore the resistance gene distribution on rice chromosomes and the way of function. Totally 124 QTLs have been identified against 20 isolates using Cartographer software with a ZYQ8/JX17 DH population, which separately are at 100 loci of 72 marker intervals on 12 rice chromosomes. Of them, 16 QTLs were determined by the isolate HB-97-36-1. 82 QTLs (66.13%) are from the resistant parent alleles, ZYQ8, while 42 QTLs (33.87%) are from the susceptible parent alleles, JX17. In comparison of their positions on chromosome, most QTLs are clustered together and distributed nearby the major genes especially the regions on chromosomes 1, 2, 8, 10 and 12. Each QTL could account for the resistance variation between 3.52%-68.64%. And, a positional QTL might display the resistance to several different isolates with different contributions.

  3. Development of an integrative database with 499 novel microsatellite markers for Macaca fascicularis

    Directory of Open Access Journals (Sweden)

    Higashino Atsunori

    2009-06-01

    Full Text Available Abstract Background Cynomolgus macaques (Macaca fascicularis are a valuable resource for linkage studies of genetic disorders, but their microsatellite markers are not sufficient. In genetic studies, a prerequisite for mapping genes is development of a genome-wide set of microsatellite markers in target organisms. A whole genome sequence and its annotation also facilitate identification of markers for causative mutations. The aim of this study is to establish hundreds of microsatellite markers and to develop an integrative cynomolgus macaque genome database with a variety of datasets including marker and gene information that will be useful for further genetic analyses in this species. Results We investigated the level of polymorphisms in cynomolgus monkeys for 671 microsatellite markers that are covered by our established Bacterial Artificial Chromosome (BAC clones. Four hundred and ninety-nine (74.4% of the markers were found to be polymorphic using standard PCR analysis. The average number of alleles and average expected heterozygosity at these polymorphic loci in ten cynomolgus macaques were 8.20 and 0.75, respectively. Conclusion BAC clones and novel microsatellite markers were assigned to the rhesus genome sequence and linked with our cynomolgus macaque cDNA database (QFbase. Our novel microsatellite marker set and genomic database will be valuable integrative resources in analyzing genetic disorders in cynomolgus macaques.

  4. Development of a pseudo/anonymised primary care research database: Proof-of-concept study.

    Science.gov (United States)

    MacRury, Sandra; Finlayson, Jim; Hussey-Wilson, Susan; Holden, Samantha

    2016-06-01

    General practice records present a comprehensive source of data that could form a variety of anonymised or pseudonymised research databases to aid identification of potential research participants regardless of location. A proof-of-concept study was undertaken to extract data from general practice systems in 15 practices across the region to form pseudo and anonymised research data sets. Two feasibility studies and a disease surveillance study compared numbers of potential study participants and accuracy of disease prevalence, respectively. There was a marked reduction in screening time and increase in numbers of potential study participants identified with the research repository compared with conventional methods. Accurate disease prevalence was established and enhanced with the addition of selective text mining. This study confirms the potential for development of national anonymised research database from general practice records in addition to improving data collection for local or national audits and epidemiological projects.

  5. Development of a comprehensive infrared-material database for the Opticam fabrication system

    Science.gov (United States)

    Cerqua-Richardson, Kathleen A.; Schmidt, Stacy; Platt, George R.; Vakiner, John G.

    1993-12-01

    A comprehensive infrared material database has been created to aid in the development of a rule-based deterministic microgrinding process for infrared optics. The process science effort on infrared materials taking place at the University of Central Florida has compiled a concise collation of easily accessible physical property data to more thoroughly understand the material/processing interactions which occur during optical fabrication. The information exists in a user-friendly form whereby designers and system operators utilizing the Opticam system, can quickly and conveniently access and incorporate material property data into the design and fabrication process. We report on the motivation, organization and application of such a database into the Opticim network. The use of the information in establishment of part design, tooling design, machine parameters and predicting the form, figure and surface quality of the resulting optic is presented.

  6. Development of the Database for Environmental Sound Research and Application (DESRA: Design, Functionality, and Retrieval Considerations

    Directory of Open Access Journals (Sweden)

    Brian Gygi

    2010-01-01

    Full Text Available Theoretical and applied environmental sounds research is gaining prominence but progress has been hampered by the lack of a comprehensive, high quality, accessible database of environmental sounds. An ongoing project to develop such a resource is described, which is based upon experimental evidence as to the way we listen to sounds in the world. The database will include a large number of sounds produced by different sound sources, with a thorough background for each sound file, including experimentally obtained perceptual data. In this way DESRA can contain a wide variety of acoustic, contextual, semantic, and behavioral information related to an individual sound. It will be accessible on the Internet and will be useful to researchers, engineers, sound designers, and musicians.

  7. Development and Dissemination of a Nationwide Helium Database for a National Assessment of Helium Resources.

    Science.gov (United States)

    Brennan, S. T.; East, J. A., II; Garrity, C. P.

    2015-12-01

    In 2013, Congress passed the Helium Stewardship Act requiring the U.S. Geological Survey (USGS) to undertake a national helium gas resource assessment to determine the nation's helium resources. An important initial component necessary to complete this assessment was the development of a comprehensive database of Helium (He) concentrations from petroleum exploration wells. Because Helium is often used as the carrier gas for compositional analyses for commercial and exploratory oil and gas wells, this limits the available helium concentration data. A literature search in peer-reviewed publications, state geologic survey databases, USGS energy geochemical databases, and the Bureau of Land Management databases provided approximately 16,000 data points from wells that had measurable He concentrations in the gas composition analyses. The data from these wells includes, date of sample collection, American Petroleum Institute well number, formation name, field name, depth of sample collection, and location. The gas compositional analyses, some performed as far back as 1934, do not all have the same level of precision and accuracy, therefore the date of the analysis is critical to the assessment as it indicates the relative amount of uncertainty in the analytical results. Non-proprietary data was used to create a GIS based interactive web interface that allows users to visualize, inspect, interact, and download our most current He data. The user can click on individual locations to see the available data at that location, as well as zoom in and out on a data density map. Concentrations on the map range from .04 mol% (lowest concentration of economic value) to 12% (highest naturally occurring values). This visual interface will allow users to develop a rapid appreciation of the areas with the highest potential for high helium concentrations within oil and gas fields.

  8. Development of Web-Based Common Cause Failure (CCF) Database Module for Nuclear Power Plants

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Hyun-Gyo; Hwang, Seok-Won; Shin, Tae-young [Korea Hydro and Nuclear Power Co. Ltd., Daejeon (Korea, Republic of)

    2015-05-15

    Probabilistic safety assessment (PSA) has been used to identify risk vulnerabilities and derive the safety improvement measures from construction to operation stages of nuclear power plants. In addition, risk insights from PSA can be applied to improve the designs and operation requirements of plants. However, reliability analysis methods for quantitative PSA evaluation have essentially inherent uncertainties, and it may create a distorted risk profiles because of the differences among the PSA models, plant designs, and operation status. Therefore, it is important to ensure the quality of the PSA model so that analysts identify design vulnerabilities and utilize risk information. Especially, the common cause failure (CCF) has been pointed out as one of major issues to be able to cause the uncertainty related to the PSA analysis methods and data because CCF has a large influence on the PSA results. Organization for economic cooperation and development /nuclear energy agent (OECD/NEA) has implemented an international common cause failure data exchange (ICDE) project for the CCF quality assurance through the development of the detailed analysis methodologies and data sharing. However, Korea Hydro and Nuclear Power company (KHNP) does not have the basis for the data gathering and analysis for CCF analyses. In case of methodology, the Alpha Factor parameter estimation, which can analyze uncertainties and estimate an interface factor (Impact Vector) with an ease, is ready to be applied rather than the Multi Greek Letter (MGL) method. This article summarizes the development of the plant-specific CCF database (DB) module considering the raw data collection and the analysis procedure based on the CCF parameter calculation method of ICDE. Although the portion affected by CCF in the PSA model is quite a large, the development efforts of the tools to collect and analyze data were insufficient. Currently, KHNP intends to improve PSA quality and ensure CCF data reliability by

  9. Phoenix Lander's Thermal Evolved Gas Analyzer: Differential Scanning Calorimeter and Mass Spectrometer Database Development

    Science.gov (United States)

    Sutter, B.; Lauer, H. V.; Golden, D. C.; Ming, D. W.; Boynton, W. V.

    2008-01-01

    The Mars Scout Phoenix lander will land in the north polar region of Mars in May, 2008. One objective of the Phoenix lander is to search for evidence of past life in the form of molecular organics that may be preserved in the subsurface soil. The Thermal Evolved Gas Analyzer (TEGA) was developed to detect these organics by coupling a simultaneous differential thermal analyzer (SDTA) with a mass spectrometer. Martian soil will be heated to approx.1000 C and potential organic decomposition products such as CO2, CH4 etc. will be examined for with the MS. TEGA s SDTA will also assess the presence of endothermic and exothermic reactions that are characteristic of soil organics and minerals as the soil is heated. The MS in addition to detecting organic decompositon products, will also assess the levels of soil inorganic volatiles such as H2O, SO2, and CO2. Organic detection has a high priority for this mission; however, TEGA has the ability to provide valuable insight into the mineralogical composition of the soil. The overall goal of this work is to develop a TEGA database of minerals that will serve as a reference for the interpretation of Phoenix-TEGA. Previous databases for the ill-fated Mars Polar Lander (MPL)-TEGA instrument only went to 725 C. Furthermore, the MPL-TEGA could only detect CO2 and H2O while the Phoenix-TEGA MS can examine up to 144 atomic mass units. The higher temperature Phoenix-TEGA SDTA coupled with the more capable MS indicates that a higher temperature database is required for TEGA interpretation. The overall goal of this work is to develop a differential scanning calorimeter (DSC) database of minerals along with corresponding MS data of evolved gases that can used to interpret TEGA data during and after mission operations. While SDTA and DSC measurement techniques are slightly different (SDTA does not use a reference pan), the results are fundamentally similar and thus DSC is a useful technique in providing comparative data for the TEGA

  10. Genetic dissection of fruit quality traits in the octoploid cultivated strawberry highlights the role of homoeo-QTL in their control.

    Science.gov (United States)

    Lerceteau-Köhler, E; Moing, A; Guérin, G; Renaud, C; Petit, A; Rothan, C; Denoyes, Béatrice

    2012-04-01

    Fruit quality traits are major breeding targets in the Rosaceae. Several of the major Rosaceae species are current or ancient polyploids. To dissect the inheritance of fruit quality traits in polyploid fleshy fruit species, we used a cultivated strawberry segregating population comprising a 213 full-sibling F1 progeny from a cross between the variety 'Capitola' and the genotype 'CF1116'. We previously developed the most comprehensive strawberry linkage map, which displays seven homoeology groups (HG), including each four homoeology linkage groups (Genetics 179:2045-2060, 2008). The map was used to identify quantitative trait loci (QTL) for 19 fruit traits related to fruit development, texture, colour, anthocyanin, sugar and organic acid contents. Analyses were carried out over two or three successive years on field-grown plants. QTL were detected for all the analysed traits. Because strawberry is an octopolyploid species, QTL controlling a given trait and located at orthologous positions on different homoeologous linkage groups within one HG are considered as homoeo-QTL. We found that, for various traits, about one-fourth of QTL were putative homoeo-QTL and were localised on two linkage groups. Several homoeo-QTL could be detected the same year, suggesting that several copies of the gene underlying the QTL are functional. The detection of some other homoeo-QTL was year-dependent. Therefore, changes in allelic expression could take place in response to environmental changes. We believe that, in strawberry as in other polyploid fruit species, the mechanisms unravelled in the present study may play a crucial role in the variations of fruit quality.

  11. QTL Analysis of Fiber Yield and Quality and Resistance to Verticillium Wilt Using Gossypium hirsutum and G.barbadense Advanced Backcross Populations

    Institute of Scientific and Technical Information of China (English)

    LI Ai-guo; WANG Tao; YUAN You-lu; LIU Guang-ping; ZHANG Bao-cai; LI Jun-wen; SHI Yu-zhen; LIU Ai-ying; YANG Ze-mao; LIU Zhi; YU Xiao-nan

    2008-01-01

    @@ To introgress elite QTL alleles of Gossypium barbadense L.for fiber yield and quality and resistance to Verticillium wilt into G.hirsutum L.,enlarge the genetic base of G.hirsutum,and provide new germplasm resources for the variety development,the cultivars Zhongmiansuo 36,G.hirsutum,and Hai 1,G.barbadense,were used as recurrent and donor parent,respectively,to produce BC1 F1,BC1S1,and BC2F1 populations.QTL analyses of fiber quality,yield-related,Key words: interspecific backcrosss; AB-QTL; fiber quality; yield; Verticillium wilt resistance

  12. Development of database of real-world diesel vehicle emission factors for China.

    Science.gov (United States)

    Shen, Xianbao; Yao, Zhiliang; Zhang, Qiang; Wagner, David Vance; Huo, Hong; Zhang, Yingzhi; Zheng, Bo; He, Kebin

    2015-05-01

    A database of real-world diesel vehicle emission factors, based on type and technology, has been developed following tests on more than 300 diesel vehicles in China using a portable emission measurement system. The database provides better understanding of diesel vehicle emissions under actual driving conditions. We found that although new regulations have reduced real-world emission levels of diesel trucks and buses significantly for most pollutants in China, NOx emissions have been inadequately controlled by the current standards, especially for diesel buses, because of bad driving conditions in the real world. We also compared the emission factors in the database with those calculated by emission factor models and used in inventory studies. The emission factors derived from COPERT (Computer Programmer to calculate Emissions from Road Transport) and MOBILE may both underestimate real emission factors, whereas the updated COPERT and PART5 (Highway Vehicle Particulate Emission Modeling Software) models may overestimate emission factors in China. Real-world measurement results and emission factors used in recent emission inventory studies are inconsistent, which has led to inaccurate estimates of emissions from diesel trucks and buses over recent years. This suggests that emission factors derived from European or US-based models will not truly represent real-world emissions in China. Therefore, it is useful and necessary to conduct systematic real-world measurements of vehicle emissions in China in order to obtain the optimum inputs for emission inventory models.

  13. Development of an extensive database of mechanical properties for Reduced Activation Ferritic/Martensitic Steels

    Energy Technology Data Exchange (ETDEWEB)

    Tanigawa, H.; Shiba, K.; Ando, M.; Wakai, E.; Jitsukawa, S. [Japan Atomic Energy Agency, Tokai-mura, Naga-gun, Ibaraki-ken (Japan); Hirose, T. [Blanket Engineering Group, Japan Atomic Energy Agency, Naka, Ibaraki (Japan); Kasada, R.; Kimura, A.; Kohyama, A. [Kyoto Univ., lnstitute of Advanced Energy (Japan); Kohno, Y. [Muroran Institute of Technology, Muroran, Hokkaido (Japan); Klueh, R.L. [0ak Ridge Noational Laboratory, TN (United States); Sokolov, M.; Stoller, R.; Zinklek, S. [0ak Ridge Noational Laboratory, Materials Science and Technology Div., TN (United States); Yamamoto, T.; Odette, G. [UCSB, Dept. of Chemical Engineering UCSB, Santa-Barbara (United States); Kurtz, R.J. [Pacifie Northwest National Laboratory, Richland WA (United States)

    2007-07-01

    Full text of publication follows: Reduced activation ferritic/martensitic steels (RAFMs) are recognized as the primary candidate structural materials for fusion blanket systems, as they have been developed based on massive industrial experience of ferritic/martensitic steel replacing Mo and Nb of high chromium heat resistant martensitic steels (such as modified 9Cr-1Mo) with W and Ta, respectively. F82H (8Cr-2W-0.2V-0.04Ta-0.1C) and JLF-1 (9Cr-2W-0.2V-0.08Ta-0.1C) are RAFMs, which have been developed and studied in Japan and the various effects of irradiation were reported. F82H is designed with emphasis on high temperature property and weldablility, and was provided and evaluated in various countries as a part of the IEA fusion materials development collaboration. The Japan/US collaboration program also has been conducted with the emphasis on heavy irradiation effects of F82H, JLF-1 and ORNL9Cr2WVTa over the past two decades using Fast Flux Testing Facility (FFTF) of PNNL and High Flux Isotope Reactor (HFIR) of ORNL, and the irradiation condition of the irradiation capsules of those reactors were precisely controlled by the well matured capsule designing and instrumentation. Now, among the existing database for RAFMs the most extensive one is that for F82H. The objective of this paper is to review the database status of RAFMs, mainly on F82H, to identify the key issues for the future development of database. Tensile, fracture toughness, creep and fatigue properties and microstructural studies before and after irradiation are summarized. (authors)

  14. Development of an online database of typical food portion sizes in Irish population groups.

    Science.gov (United States)

    Lyons, Jacqueline; Walton, Janette; Flynn, Albert

    2013-01-01

    The Irish Food Portion Sizes Database (available at www.iuna.net) describes typical portion weights for an extensive range of foods and beverages for Irish children, adolescents and adults. The present paper describes the methodologies used to develop the database and some key characteristics of the portion weight data contained therein. The data are derived from three large, cross-sectional food consumption surveys carried out in Ireland over the last decade: the National Children's Food Survey (2003-2004), National Teens' Food Survey (2005-2006) and National Adult Nutrition Survey (2008-2010). Median, 25th and 75th percentile portion weights are described for a total of 545 items across the three survey groups, split by age group or sex as appropriate. The typical (median) portion weights reported for adolescents and adults are similar for many foods, while those reported for children are notably smaller. Adolescent and adult males generally consume larger portions than their female counterparts, though similar portion weights may be consumed where foods are packaged in unit amounts (for example, pots of yoghurt). The inclusion of energy under-reporters makes little difference to the estimation of typical portion weights in adults. The data have wide-ranging applications in dietary assessment and food labelling, and will serve as a useful reference against which to compare future portion size data from the Irish population. The present paper provides a useful context for researchers and others wishing to use the Irish Food Portion Sizes Database, and may guide researchers in other countries in establishing similar databases of their own.

  15. Adjusting for COPD severity in database research: developing and validating an algorithm

    Directory of Open Access Journals (Sweden)

    Goossens LMA

    2011-12-01

    Full Text Available Lucas MA Goossens1, Christine L Baker2, Brigitta U Monz3, Kelly H Zou2, Maureen PMH Rutten-van Mölken11Institute for Medical Technology Assessment, Erasmus University, Rotterdam, The Netherlands; 2Pfizer Inc, New York City, NY, USA; 3Boehringer Ingelheim International GmbH, Ingelheim am Rhein, GermanyPurpose: When comparing chronic obstructive lung disease (COPD interventions in database research, it is important to adjust for severity. Global Initiative for Chronic Obstructive Lung Disease (GOLD guidelines grade severity according to lung function. Most databases lack data on lung function. Previous database research has approximated COPD severity using demographics and healthcare utilization. This study aims to derive an algorithm for COPD severity using baseline data from a large respiratory trial (UPLIFT.Methods: Partial proportional odds logit models were developed for probabilities of being in GOLD stages II, III and IV. Concordance between predicted and observed stage was assessed using kappa-statistics. Models were estimated in a random selection of 2/3 of patients and validated in the remainder. The analysis was repeated in a subsample with a balanced distribution across severity stages. Univariate associations of COPD severity with the covariates were tested as well.Results: More severe COPD was associated with being male and younger, having quit smoking, lower BMI, osteoporosis, hospitalizations, using certain medications, and oxygen. After adjusting for these variables, co-morbidities, previous healthcare resource use (eg, emergency room, hospitalizations and inhaled corticosteroids, xanthines, or mucolytics were no longer independently associated with COPD severity, although they were in univariate tests. The concordance was poor (kappa = 0.151 and only slightly better in the balanced sample (kappa = 0.215.Conclusion: COPD severity cannot be reliably predicted from demographics and healthcare use. This limitation should be

  16. Developing High-resolution Soil Database for Regional Crop Modeling in East Africa

    Science.gov (United States)

    Han, E.; Ines, A. V. M.

    2014-12-01

    The most readily available soil data for regional crop modeling in Africa is the World Inventory of Soil Emission potentials (WISE) dataset, which has 1125 soil profiles for the world, but does not extensively cover countries Ethiopia, Kenya, Uganda and Tanzania in East Africa. Another dataset available is the HC27 (Harvest Choice by IFPRI) in a gridded format (10km) but composed of generic soil profiles based on only three criteria (texture, rooting depth, and organic carbon content). In this paper, we present a development and application of a high-resolution (1km), gridded soil database for regional crop modeling in East Africa. Basic soil information is extracted from Africa Soil Information Service (AfSIS), which provides essential soil properties (bulk density, soil organic carbon, soil PH and percentages of sand, silt and clay) for 6 different standardized soil layers (5, 15, 30, 60, 100 and 200 cm) in 1km resolution. Soil hydraulic properties (e.g., field capacity and wilting point) are derived from the AfSIS soil dataset using well-proven pedo-transfer functions and are customized for DSSAT-CSM soil data requirements. The crop model is used to evaluate crop yield forecasts using the new high resolution soil database and compared with WISE and HC27. In this paper we will present also the results of DSSAT loosely coupled with a hydrologic model (VIC) to assimilate root-zone soil moisture. Creating a grid-based soil database, which provides a consistent soil input for two different models (DSSAT and VIC) is a critical part of this work. The created soil database is expected to contribute to future applications of DSSAT crop simulation in East Africa where food security is highly vulnerable.

  17. Developing STR databases on structured populations: the native South Siberian population versus the Russian population.

    Science.gov (United States)

    Zhivotovsky, Lev A; Malyarchuk, Boris A; Derenko, Miroslava V; Wozniak, Marcin; Grzybowski, Tomasz

    2009-09-01

    Developing a forensic DNA database on a population that consists of local ethnic groups separated by physical and cultural barriers is questionable as it can be genetically subdivided. On the other side, small sizes of ethnic groups, especially in alpine regions where they are sub-structured further into small villages, prevent collecting a large sample from each ethnic group. For such situations, we suggest to obtain both a total population database on allele frequencies across ethnic groups and a list of theta-values between the groups and the total data. We have genotyped 558 individuals from the native population of South Siberia, consisting of nine ethnic groups, at 17 autosomal STR loci of the kit packages AmpFlSTR SGM Plus i, Cyrillic AmpFlSTR Profiler Plus. The groups differentiate from each other with average theta-values of around 1.1%, and some reach up to three to four percent at certain loci. There exists between-village differentiation as well. Therefore, a database for the population of South Siberia is composed of data on allele frequencies in the pool of ethnic groups and data on theta-values that indicate variation in allele frequencies across the groups. Comparison to additional data on northeastern Asia (the Chukchi and Koryak) shows that differentiation in allele frequencies among small groups that are separated by large geographic distance can be even greater. In contrast, populations of Russians that live in large cities of the European part of Russia are homogeneous in allele frequencies, despite large geographic distance between them, and thus can be described by a database on allele frequencies alone, without any specific information on theta-values.

  18. Developing a Central “Point-of-Truth” Database for Core Facility Information

    Science.gov (United States)

    Cheng, S.; Webber, G.; Bourges-Waldegg, D.; Pearse, R.V.

    2014-01-01

    Core facilities need customers, yet an average researcher is aware of a very small fraction of the facilities available near them. Diligent facilities combat this knowledge gap by broadcasting information about their facility either locally, or by publishing information on one or multiple public-facing websites or third-party repositories of information (e.g. VGN cores database or Science Exchange). Each additional site of information about a facility increases visibility but also impairs their ability to maintain up-to-date information on all sites. Additionally, most third-party repositories house their data in traditional relational databases that are not indexable by common search engines. To start addressing these problems, the eagle-i project (an free, open-source, open-access, publication platform), has begun integrating its core facility database with external websites and web applications allowing them to synchronize their information in real-time. We present here two experimental integrations. The Harvard Catalyst Cores webpage originally required independent updates which were not within the direct control of the core directors themselves. The eagle-i linked open data architecture developed now allows the Catalyst cores page to pull information from the Harvard eagle-i server and update all data on it's page accordingly. Additionally, Harvard's “Profiles” web application references eagle-i data and links resource information from eagle-i to personnel information in the Profiles database. Because of these direct links, updating information in Harvard's eagle-i server (which can be accessed directly by facility directors through an account on the eagle-i SWEET), automatically updates information on the Catalyst Cores webpage and updates resource counts linked to a researcher's public profile. This functionality of the eagle-i platform as a central “point-of-truth” for information has the potential to drastically reduce the effort required to

  19. Multiple QTL Determine Dorsal Abdominal Scale Patterns in the Mosquito Aedes aegypti.

    Science.gov (United States)

    Mori, Akio; Tsuda, Yoshio; Takagi, Masahiro; Higa, Yukiko; Severson, David W

    2016-09-01

    The mosquito, Aedes aegypti (L.) originated in Sub-Saharan Africa as a dark form sylvan species (A. aegypti formosus). Evolution of A. aegypti aegypti type form as a human commensal facilitated its colonization of most semitropical and tropical areas. We investigated the genetic basis for abdominal white scale presence that represents the diagnostic for sylvan A. aegypti formosus (scales absent), from type form (scales present) and A. aegypti queenslandensis form (dense scaling). We performed quantitative trait locus (QTL) mapping using 3 criteria for scale patterns among 192 F1 intercross progeny from matings between a queenslandensis type and an aegypti type form. Results identified 3 QTL determining scale patterns and indicated that classification criteria impact robustness of QTL LOD support. Dark- and light-colored forms exist in sympatry, but vary in multiple phenotypic characteristics, including preferences for vertebrate host, oviposition container, house-entering behavior, and dengue vector competence. Markers associated with 2 QTL regions reflected major reductions in recombination frequencies compared with the standard type form linkage map, suggestive of inversion polymorphisms associated with observed linkage disequilibrium between type-specific characteristics. Understanding the genic basis for differences in A. aegypti forms could inform efforts to develop new mosquito and arboviral disease control strategies. © The American Genetic Association 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  20. Identification of nutrient and physical seed trait QTL in the model legume Lotus japonicus.

    Science.gov (United States)

    Klein, Melinda A; Grusak, Michael A

    2009-08-01

    Legume seeds have the potential to provide a significant portion of essential micronutrients to the human diet. To identify the genetic basis for seed nutrient density, quantitative trait locus (QTL) analysis was conducted with the Miyakojima MG-20 x Gifu B-129 recombinant inbred population from the model legume Lotus japonicus. This population was grown to seed under greenhouse conditions in 2006 and 2007. Phenotypic data were collected for seed calcium (Ca), copper (Cu), iron (Fe), potassium (K), magnesium (Mg), manganese (Mn), phosphorus (P), sulfur (S), and zinc (Zn) concentrations and content. Data for physical seed traits (average seed mass and seed-pod allocation values) were also collected. Based on these phenotypic data, QTL analyses identified 103 QTL linked to 55 different molecular markers. Transgressive segregation, identified within this recombinant inbred population for both seed nutrient and physical traits, suggests new allelic combinations are available for agronomic trait improvement. QTL co-localization was also seen, suggesting that common transport processes might contribute to seed nutrient loading. Identification of loci involved in seed mineral density can be an important first step in identifying the genetic factors and, consequently, the physiological processes involved in mineral distribution to developing seeds. Longer term research efforts will focus on facilitating agronomic breeding efforts through ortholog identification in related crop legumes.

  1. Development of educational image databases and e-books for medical physics training.

    Science.gov (United States)

    Tabakov, S; Roberts, V C; Jonsson, B-A; Ljungberg, M; Lewis, C A; Wirestam, R; Strand, S-E; Lamm, I-L; Milano, F; Simmons, A; Deane, C; Goss, D; Aitken, V; Noel, A; Giraud, J-Y; Sherriff, S; Smith, P; Clarke, G; Almqvist, M; Jansson, T

    2005-09-01

    Medical physics education and training requires the use of extensive imaging material and specific explanations. These requirements provide an excellent background for application of e-Learning. The EU projects Consortia EMERALD and EMIT developed five volumes of such materials, now used in 65 countries. EMERALD developed e-Learning materials in three areas of medical physics (X-ray diagnostic radiology, nuclear medicine and radiotherapy). EMIT developed e-Learning materials in two further areas: ultrasound and magnetic resonance imaging. This paper describes the development of these e-Learning materials (consisting of e-books and educational image databases). The e-books include tasks helping studying of various equipment and methods. The text of these PDF e-books is hyperlinked with respective images. The e-books are used through the readers' own Internet browser. Each Image Database (IDB) includes a browser, which displays hundreds of images of equipment, block diagrams and graphs, image quality examples, artefacts, etc. Both the e-books and IDB are engraved on five separate CD-ROMs. Demo of these materials can be taken from www.emerald2.net.

  2. An MRI-based atlas and database of the developing mouse brain.

    Science.gov (United States)

    Chuang, Nelson; Mori, Susumu; Yamamoto, Akira; Jiang, Hangyi; Ye, Xin; Xu, Xin; Richards, Linda J; Nathans, Jeremy; Miller, Michael I; Toga, Arthur W; Sidman, Richard L; Zhang, Jiangyang

    2011-01-01

    The advent of mammalian gene engineering and genetically modified mouse models has led to renewed interest in developing resources for referencing and quantitative analysis of mouse brain anatomy. In this study, we used diffusion tensor imaging (DTI) for quantitative characterization of anatomical phenotypes in the developing mouse brain. As an anatomical reference for neuroscience research using mouse models, this paper presents DTI based atlases of ex vivo C57BL/6 mouse brains at several developmental stages. The atlas complements existing histology and MRI-based atlases by providing users access to three-dimensional, high-resolution images of the developing mouse brain, with distinct tissue contrasts and segmentations of major gray matter and white matter structures. The usefulness of the atlas and database was demonstrated by quantitative measurements of the development of major gray matter and white matter structures. Population average images of the mouse brain at several postnatal stages were created using large deformation diffeomorphic metric mapping and their anatomical variations were quantitatively characterized. The atlas and database enhance our ability to examine the neuroanatomy in normal or genetically engineered mouse strains and mouse models of neurological diseases.

  3. An MRI-based Atlas and Database of the Developing Mouse Brain

    Science.gov (United States)

    Chuang, Nelson; Mori, Susumu; Yamamoto, Akira; Jiang, Hangyi; Ye, Xin; Xu, Xin; Richards, Linda J.; Nathans, Jeremy; Miller, Michael I.; W.Toga, Arthur; Sidman, Richard L.; Zhang, Jiangyang

    2010-01-01

    The advent of mammalian gene engineering and genetically modified mouse models has led to renewed interest in developing resources for referencing and quantitative analysis of mouse brain anatomy. In this study, we used diffusion tensor imaging (DTI) for quantitative characterization of anatomical phenotypes in the developing mouse brain. As an anatomical reference for neuroscience research using mouse models, this paper presents DTI based atlases of ex vivo C57BL/6 mouse brains at several developmental stages. The atlas complements existing histology and MRI-based atlases by providing users access to three-dimensional, high-resolution images of the developing mouse brain, with distinct tissue contrasts and segmentations of major gray matter and white matter structures. The usefulness of the atlas and database was demonstrated by quantitative measurements of the development of major gray matter and white matter structures. Population average images of the mouse brain at several postnatal stages were created using large deformation diffeomorphic metric mapping and their anatomical variations were quantitatively characterized. The atlas and database enhance our ability to examine the neuroanatomy in normal or genetically engineered mouse strains and mouse models of neurological diseases. PMID:20656042

  4. Stories Matter: Conceptual Challenges in the Development of Oral History Database Building Software

    Directory of Open Access Journals (Sweden)

    Erin Jessee

    2010-11-01

    Full Text Available Stories Matter is new oral history database building software designed by an interdisciplinary team of oral historians and a software engineer affiliated with the Centre for Oral History and Digital Storytelling at Concordia University in Montreal, Quebec, Canada. It encourages a shift away from transcription, enabling oral historians to continue to interact with their interviews in an efficient manner without compromising the greater life history context of their interviewees. This article addresses some of the conceptual challenges that arose when developing this software. URN: http://nbn-resolving.de/urn:nbn:de:0114-fqs110119

  5. Construction of a bibliographic information database and development of retrieval system for research reports in nuclear science and technology (II)

    Energy Technology Data Exchange (ETDEWEB)

    Han, Duk Haeng; Kim, Tae Whan; Choi, Kwang; Yoo, An Na; Keum, Jong Yong; Kim, In Kwon [Korea Atomic Energy Research Institute, Taejon (Korea, Republic of)

    1996-05-01

    The major goal of this project is to construct a bibliographic information database in nuclear engineering and to develop a prototype retrieval system. To give an easy access to microfiche research report, this project has accomplished the construction of microfiche research reports database and the development of retrieval system. The results of the project are as follows; 1. Microfiche research reports database was constructed by downloading from DOE Energy, NTIS, INIS. 2. The retrieval system was developed in host and web version using access point such as title, abstracts, keyword, report number. 6 tabs., 8 figs., 11 refs. (Author) .new.

  6. VibrioBase: A Model for Next-Generation Genome and Annotation Database Development

    Directory of Open Access Journals (Sweden)

    Siew Woh Choo

    2014-01-01

    Full Text Available To facilitate the ongoing research of Vibrio spp., a dedicated platform for the Vibrio research community is needed to host the fast-growing amount of genomic data and facilitate the analysis of these data. We present VibrioBase, a useful resource platform, providing all basic features of a sequence database with the addition of unique analysis tools which could be valuable for the Vibrio research community. VibrioBase currently houses a total of 252 Vibrio genomes developed in a user-friendly manner and useful to enable the analysis of these genomic data, particularly in the field of comparative genomics. Besides general data browsing features, VibrioBase offers analysis tools such as BLAST interfaces and JBrowse genome browser. Other important features of this platform include our newly developed in-house tools, the pairwise genome comparison (PGC tool, and pathogenomics profiling tool (PathoProT. The PGC tool is useful in the identification and comparative analysis of two genomes, whereas PathoProT is designed for comparative pathogenomics analysis of Vibrio strains. Both of these tools will enable researchers with little experience in bioinformatics to get meaningful information from Vibrio genomes with ease. We have tested the validity and suitability of these tools and features for use in the next-generation database development.

  7. Drug development and nonclinical to clinical translational databases: past and current efforts.

    Science.gov (United States)

    Monticello, Thomas M

    2015-01-01

    The International Consortium for Innovation and Quality (IQ) in Pharmaceutical Development is a science-focused organization of pharmaceutical and biotechnology companies. The mission of the Preclinical Safety Leadership Group (DruSafe) of the IQ is to advance science-based standards for nonclinical development of pharmaceutical products and to promote high-quality and effective nonclinical safety testing that can enable human risk assessment. DruSafe is creating an industry-wide database to determine the accuracy with which the interpretation of nonclinical safety assessments in animal models correctly predicts human risk in the early clinical development of biopharmaceuticals. This initiative aligns with the 2011 Food and Drug Administration strategic plan to advance regulatory science and modernize toxicology to enhance product safety. Although similar in concept to the initial industry-wide concordance data set conducted by International Life Sciences Institute's Health and Environmental Sciences Institute (HESI/ILSI), the DruSafe database will proactively track concordance, include exposure data and large and small molecules, and will continue to expand with longer duration nonclinical and clinical study comparisons. The output from this work will help identify actual human and animal adverse event data to define both the reliability and the potential limitations of nonclinical data and testing paradigms in predicting human safety in phase 1 clinical trials. © 2014 by The Author(s).

  8. QTL analysis of Kernel-related traits in maize using an immortalized F2 population.

    Science.gov (United States)

    Zhang, Zhanhui; Liu, Zonghua; Hu, Yanmin; Li, Weihua; Fu, Zhiyuan; Ding, Dong; Li, Haochuan; Qiao, Mengmeng; Tang, Jihua

    2014-01-01

    Kernel size and weight are important determinants of grain yield in maize. In this study, multivariate conditional and unconditional quantitative trait loci (QTL), and digenic epistatic analyses were utilized in order to elucidate the genetic basis for these kernel-related traits. Five kernel-related traits, including kernel weight (KW), volume (KV), length (KL), thickness (KT), and width (KWI), were collected from an immortalized F2 (IF2) maize population comprising of 243 crosses performed at two separate locations over a span of two years. A total of 54 unconditional main QTL for these five kernel-related traits were identified, many of which were clustered in chromosomal bins 6.04-6.06, 7.02-7.03, and 10.06-10.07. In addition, qKL3, qKWI6, qKV10a, qKV10b, qKW10a, and qKW7a were detected across multiple environments. Sixteen main QTL were identified for KW conditioned on the other four kernel traits (KL, KWI, KT, and KV). Thirteen main QTL were identified for KV conditioned on three kernel-shape traits. Conditional mapping analysis revealed that KWI and KV had the strongest influence on KW at the individual QTL level, followed by KT, and then KL; KV was mostly strongly influenced by KT, followed by KWI, and was least impacted by KL. Digenic epistatic analysis identified 18 digenic interactions involving 34 loci over the entire genome. However, only a small proportion of them were identical to the main QTL we detected. Additionally, conditional digenic epistatic analysis revealed that the digenic epistasis for KW and KV were entirely determined by their constituent traits. The main QTL identified in this study for determining kernel-related traits with high broad-sense heritability may play important roles during kernel development. Furthermore, digenic interactions were shown to exert relatively large effects on KL (the highest AA and DD effects were 4.6% and 6.7%, respectively) and KT (the highest AA effects were 4.3%).

  9. Mapping of angular leaf spot resistance QTL in common bean (Phaseolus vulgaris L. under different environments

    Directory of Open Access Journals (Sweden)

    Oblessuc Paula

    2012-06-01

    Full Text Available Abstract Background Common bean (Phaseolus vulgaris L. is the most important grain legume for human diet worldwide and the angular leaf spot (ALS is one of the most devastating diseases of this crop, leading to yield losses as high as 80%. In an attempt to breed resistant cultivars, it is important to first understand the inheritance mode of resistance and to develop tools that could be used in assisted breeding. Therefore, the aim of this study was to identify quantitative trait loci (QTL controlling resistance to ALS under natural infection conditions in the field and under inoculated conditions in the greenhouse. Results QTL analyses were made using phenotypic data from 346 recombinant inbreed lines from the IAC-UNA x CAL 143 cross, gathered in three experiments, two of which were conducted in the field in different seasons and one in the greenhouse. Joint composite interval mapping analysis of QTL x environment interaction was performed. In all, seven QTLs were mapped on five linkage groups. Most of them, with the exception of two, were significant in all experiments. Among these, ALS10.1DG,UC presented major effects (R2 between 16% - 22%. This QTL was found linked to the GATS11b marker of linkage group B10, which was consistently amplified across a set of common bean lines and was associated with the resistance. Four new QTLs were identified. Between them the ALS5.2 showed an important effect (9.4% under inoculated conditions in the greenhouse. ALS4.2 was another major QTL, under natural infection in the field, explaining 10.8% of the variability for resistance reaction. The other QTLs showed minor effects on resistance. Conclusions The results indicated a quantitative inheritance pattern of ALS resistance in the common bean line CAL 143. QTL x environment interactions were observed. Moreover, the major QTL identified on linkage group B10 could be important for bean breeding, as it was stable in all the environments. Thereby, the GATS11b

  10. Phenotypic plasticity, QTL mapping and genomic characterization of bud set in black poplar

    Directory of Open Access Journals (Sweden)

    Fabbrini Francesco

    2012-04-01

    Full Text Available Abstract Background The genetic control of important adaptive traits, such as bud set, is still poorly understood in most forest trees species. Poplar is an ideal model tree to study bud set because of its indeterminate shoot growth. Thus, a full-sib family derived from an intraspecific cross of P. nigra with 162 clonally replicated progeny was used to assess the phenotypic plasticity and genetic variation of bud set in two sites of contrasting environmental conditions. Results Six crucial phenological stages of bud set were scored. Night length appeared to be the most important signal triggering the onset of growth cessation. Nevertheless, the effect of other environmental factors, such as temperature, increased during the process. Moreover, a considerable role of genotype × environment (G × E interaction was found in all phenological stages with the lowest temperature appearing to influence the sensitivity of the most plastic genotypes. Descriptors of growth cessation and bud onset explained the largest part of phenotypic variation of the entire process. Quantitative trait loci (QTL for these traits were detected. For the four selected traits (the onset of growth cessation (date2.5, the transition from shoot to bud (date1.5, the duration of bud formation (subproc1 and bud maturation (subproc2 eight and sixteen QTL were mapped on the maternal and paternal map, respectively. The identified QTL, each one characterized by small or modest effect, highlighted the complex nature of traits involved in bud set process. Comparison between map location of QTL and P. trichocarpa genome sequence allowed the identification of 13 gene models, 67 bud set-related expressional and six functional candidate genes (CGs. These CGs are functionally related to relevant biological processes, environmental sensing, signaling, and cell growth and development. Some strong QTL had no obvious CGs, and hold great promise to identify unknown genes that affect bud set

  11. New Insights on Eggplant/Tomato/Pepper Synteny and Identification of Eggplant and Pepper Orthologous QTL

    Directory of Open Access Journals (Sweden)

    Riccardo Rinaldi

    2016-07-01

    Full Text Available Eggplant, pepper and tomato are the most exploited berry-producing vegetables within the Solanaceae family. Their genomes differ in size, but each has 12 chromosomes which have undergone rearrangements causing a redistribution of loci. The genome sequences of all three species are available but differ in coverage, assembly quality and percentage of anchorage.Determining their syntenic relationship and QTL orthology will contribute to exploit genomic resources and genetic data for key agronomic traits.The syntenic analysis between tomato and pepper based on the alignment of 34,727 tomato CDS to the pepper genome sequence, identified 19,734 unique hits. The resulting synteny map confirmed the 14 inversions and 10 translocations previously documented, but also highlighted 3 new translocations and 4 major new inversions. Furthermore, each of the 12 chromosomes exhibited a number of rearrangements involving small regions of 0.5-0.7 Mbp.Due to high fragmentation of the publicly available eggplant genome sequence, physical localization of most eggplant QTL was not possible, thus, we compared the organization of the eggplant genetic map with the genome sequence of both tomato and pepper. The eggplant/tomato syntenic map confirmed all the 10 translocations but only 9 of the 14 known inversions; on the other hand, a newly detected inversion was recognized while another one was not confirmed. The eggplant/pepper syntenic map confirmed 10 translocations and 8 inversions already detected and suggested a putative new translocation.In order to perform the assessment of eggplant and pepper QTL orthology, the eggplant and pepper sequence-based markers located in their respective genetic map were aligned onto the pepper genome. GBrowse in pepper was used as reference platform for QTL positioning. A set of 151 pepper QTL were located as well as 212 eggplant QTL, including 76 major QTL (PVE ≥ 10% affecting key agronomic traits. Most were confirmed to cluster in

  12. Marker2sequence, mine your QTL regions for candidate genes

    NARCIS (Netherlands)

    Chibon, P.Y.F.R.P.; Schoof, H.; Visser, R.G.F.; Finkers, H.J.

    2012-01-01

    Marker2sequence (M2S) aims at mining quantitative trait loci (QTLs) for candidate genes. For each gene, within the QTL region, M2S uses data integration technology to integrate putative gene function with associated gene ontology terms, proteins, pathways and literature. As a typical QTL region

  13. Development and Validation of Search Filters to Identify Articles on Family Medicine in Online Medical Databases.

    Science.gov (United States)

    Pols, David H J; Bramer, Wichor M; Bindels, Patrick J E; van de Laar, Floris A; Bohnen, Arthur M

    2015-01-01

    Physicians and researchers in the field of family medicine often need to find relevant articles in online medical databases for a variety of reasons. Because a search filter may help improve the efficiency and quality of such searches, we aimed to develop and validate search filters to identify research studies of relevance to family medicine. Using a new and objective method for search filter development, we developed and validated 2 search filters for family medicine. The sensitive filter had a sensitivity of 96.8% and a specificity of 74.9%. The specific filter had a specificity of 97.4% and a sensitivity of 90.3%. Our new filters should aid literature searches in the family medicine field. The sensitive filter may help researchers conducting systematic reviews, whereas the specific filter may help family physicians find answers to clinical questions at the point of care when time is limited.

  14. An interactive three-dimensional digital atlas and quantitative database of human development.

    Science.gov (United States)

    de Bakker, Bernadette S; de Jong, Kees H; Hagoort, Jaco; de Bree, Karel; Besselink, Clara T; de Kanter, Froukje E C; Veldhuis, Tyas; Bais, Babette; Schildmeijer, Reggie; Ruijter, Jan M; Oostra, Roelof-Jan; Christoffels, Vincent M; Moorman, Antoon F M

    2016-11-25

    Current knowledge about human development is based on the description of a limited number of embryonic specimens published in original articles and textbooks, often more than 100 years ago. It is exceedingly difficult to verify this knowledge, given the restricted availability of human embryos. We created a three-dimensional digital atlas and database spanning the first 2 months of human development, based on analysis of nearly 15,000 histological sections of the renowned Carnegie Collection of human embryonic specimens. We identified and labeled up to 150 organs and structures per specimen and made three-dimensional models to quantify growth, establish changes in the position of organs, and clarify current ambiguities. The atlas provides an educational and reference resource for studies on early human development, growth, and congenital malformations. Copyright © 2016, American Association for the Advancement of Science.

  15. Dynamic analysis of QTL for plant height at different developmental stages in maize (Zea mays L.)

    Institute of Scientific and Technical Information of China (English)

    YAN Jianbing; TANG Hua; HUANG Yiqin; SHI Yonggang; LI Jiansheng; ZHENG Yonglian

    2003-01-01

    Plant height in maize is not only one of important agronomic traits, but also one of model traits suitablefor study of developmental biology. Using data from fieldtests in two locations (Wuhan and Xiangfan) within the sameyear and a molecular linkage map covering all of 10 chro-mosomes, QTLs affecting plant height at five different de-velopmental stages were mapped and analyzed by the com-bination of composite interval mapping and the conditionalanalysis method. Eight QTLs for plant height at differentstages were located at different regions of five chromosomes(LOD≥2.5). The results showed that there were differenteffect values of QTL on plant height at different develop-mental stages. Three QTLs were detected at all of five stages.With different stages, contributory percentage of single QTL to plant height varied between 3.8% and 17.1%. It suggestedthat the expression of each QTL controlling plant height wasdifferent at different stages. With net growth, seven condi-tional QTLs for plant height were detected. Conditional QTLs were nearly detected at each stage, and QTLs of Ph1-1, Ph1-2, Ph3, Ph5-2 and Ph9 were detected at both locations (Wuhan and Xiangfan). The contributory percentage of single conditional QTL to plant height varied between 3.8% and 12.3%, indicating that QTLs for plant height are expressed in different time-space. Therefore, QTL expressed at different stages should be considered when marker assistant selection is conducted for quantitative traits.

  16. Development of a paperless, Y2K compliant exposure tracking database at Los Alamos National Laboratory.

    Science.gov (United States)

    Conwell, J L; Creek, K L; Pozzi, A R; Whyte, H M

    2001-02-01

    The Industrial Hygiene and Safety Group at Los Alamos National Laboratory (LANL) developed a database application known as IH DataView, which manages industrial hygiene monitoring data. IH DataView replaces a LANL legacy system, IHSD, that restricted user access to a single point of data entry needed enhancements that support new operational requirements, and was not Year 2000 (Y2K) compliant. IH DataView features a comprehensive suite of data collection and tracking capabilities. Through the use of Oracle database management and application development tools, the system is Y2K compliant and Web enabled for easy deployment and user access via the Internet. System accessibility is particularly important because LANL operations are spread over 43 square miles, and industrial hygienists (IHs) located across the laboratory will use the system. IH DataView shows promise of being useful in the future because it eliminates these problems. It has a flexible architecture and sophisticated capability to collect, track, and analyze data in easy-to-use form.

  17. COOL, LCG Conditions Database for the LHC Experiments Development and Deployment Status

    CERN Document Server

    Valassi, A; Clemencic, M; Pucciani, G; Schmidt, S A; Wache, M; CERN. Geneva. IT Department, DM

    2009-01-01

    The COOL project provides common software components and tools for the handling of the conditions data of the LHC experiments. It is part of the LCG Persistency Framework (PF), a broader project set up within the context of the LCG Application Area (AA) to devise common persistency solutions for the LHC experiments. COOL software development is the result of the collaboration between the CERN IT Department and ATLAS and LHCb, the two experiments that have chosen it as the basis of their conditions database infrastructure. COOL supports conditions data persistency using several relational technologies (Oracle, MySQL, SQLite and FroNTier), based on the CORAL Common Relational Abstraction Layer. For both experiments, Oracle is the backend used for the deployment of COOL database services at Tier0 and Tier1 sites of the LHC Computing Grid. While the development of new software functionalities is being frozen as LHC operations are ramping up, the main focus for the project in 2008 has shifted to performance optimi...

  18. Development and use of a knowledge translation tool: the rehabilitation measures database.

    Science.gov (United States)

    Moore, Jennifer L; Raad, Jason; Ehrlich-Jones, Linda; Heinemann, Allen W

    2014-01-01

    Clinical translation of research evidence is a challenge for rehabilitation clinicians. Publicly accessible and free, online educational resources that summarize research evidence can support implementation of research evidence into practice. Several online resources have been developed recently to overcome common knowledge translation barriers. The Rehabilitation Measures Database (RMD) is a free, web-based searchable database of standardized instruments that was designed to support knowledge translation. It helps clinicians select valid and sensitive instruments for screening patients, monitoring progress, and assessing rehabilitation outcomes. The RMD was developed using feedback from focus groups and beta-test participants. Since its launch in 2011, RMD use has grown to an average of 1851 hits per day from 168 countries. As of September 2013, 202 instrument summaries are viewable in the RMD. Most summaries are linked to copies of the instrument or to purchase instructions. A challenge in updating and expanding the RMD is securing the resources to ensure its future. Collaborative relationships with professional associations and graduate programs in the health sciences are critical in sustaining this resource.

  19. SNP Discovery and QTL Mapping of Sclerotinia Basal Stalk Rot Resistance in Sunflower using Genotyping-by-Sequencing.

    Science.gov (United States)

    Talukder, Zahirul I; Seiler, Gerald J; Song, Qijian; Ma, Guojia; Qi, Lili

    2016-11-01

    Basal stalk rot (BSR), caused by the ascomycete fungus (Lib.) de Bary, is a serious disease of sunflower ( L.) in the cool and humid production areas of the world. Quantitative trait loci (QTL) for BSR resistance were identified in a sunflower recombinant inbred line (RIL) population derived from the cross HA 441 × RHA 439. A genotyping-by-sequencing (GBS) approach was adapted to discover single nucleotide polymorphism (SNP) markers. A genetic linkage map was developed comprised of 1053 SNP markers on 17 linkage groups (LGs) spanning 1401.36 cM. The RILs were tested in five environments (locations and years) for resistance to BSR. Quantitative trait loci were identified in each environment separately and also with integrated data across environments. A total of six QTL were identified in all five environments: one of each on LGs 4, 9, 10, 11, 16, and 17. The most significant QTL, and , were identified at multiple environments on LGs 10 and 17, explaining 31.6 and 20.2% of the observed phenotypic variance, respectively. The remaining four QTL, , , , and , were detected in only one environment on LGs 4, 9, 11, and 16, respectively. Each of these QTL explains between 6.4 and 10.5% of the observed phenotypic variation in the RIL population. Alleles conferring increased resistance were contributed by both parents. The potential of the and in marker-assisted selection (MAS) breeding are discussed. Copyright © 2016 Crop Science Society of America.

  20. SNP Discovery and QTL Mapping of Sclerotinia Basal Stalk Rot Resistance in Sunflower using Genotyping-by-Sequencing

    Directory of Open Access Journals (Sweden)

    Zahirul I. Talukder

    2016-11-01

    Full Text Available Basal stalk rot (BSR, caused by the ascomycete fungus (Lib. de Bary, is a serious disease of sunflower ( L. in the cool and humid production areas of the world. Quantitative trait loci (QTL for BSR resistance were identified in a sunflower recombinant inbred line (RIL population derived from the cross HA 441 × RHA 439. A genotyping-by-sequencing (GBS approach was adapted to discover single nucleotide polymorphism (SNP markers. A genetic linkage map was developed comprised of 1053 SNP markers on 17 linkage groups (LGs spanning 1401.36 cM. The RILs were tested in five environments (locations and years for resistance to BSR. Quantitative trait loci were identified in each environment separately and also with integrated data across environments. A total of six QTL were identified in all five environments: one of each on LGs 4, 9, 10, 11, 16, and 17. The most significant QTL, and , were identified at multiple environments on LGs 10 and 17, explaining 31.6 and 20.2% of the observed phenotypic variance, respectively. The remaining four QTL, , , , and , were detected in only one environment on LGs 4, 9, 11, and 16, respectively. Each of these QTL explains between 6.4 and 10.5% of the observed phenotypic variation in the RIL population. Alleles conferring increased resistance were contributed by both parents. The potential of the and in marker-assisted selection (MAS breeding are discussed.

  1. 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...

  2. 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...

  3. Jet aircraft engine emissions database development: 1992 military, charter, and nonscheduled traffic

    Science.gov (United States)

    Metwally, Munir

    1995-01-01

    Studies relating to environmental emissions database for the military, charter, and non-scheduled traffic for the year 1992 were conducted by McDonnell Douglas Aerospace Transport Aircraft. The report also includes a comparison with a previous emission database for year 1990. Discussions of the methodology used in formulating these databases are provided.

  4. Database Management System Construction for the Evaluation Results of Intensive Land Use in the Development Areas of Hunan Province

    Institute of Scientific and Technical Information of China (English)

    Mingliang; LIU

    2013-01-01

    Using spatial data integration and database technology,analyzing and integrating the assessment results in all the development zones at different time in Hunan Province,the paper is intended to construct the database and managerial system for the assessment results of land use intensity in development zones,thus formulating"one map"of Hunan Development zones and realizing the integrated management and application of the assessment results in all the development zones at any time of Hunan above the provincial level.It has been proved that the system has good application effect and promising development in land management for land management departments and development zones.

  5. RECENT DEVELOPMENTS IN HYDROWEB DATABASE Water level time series on lakes and reservoirs (Invited)

    Science.gov (United States)

    Cretaux, J.; Arsen, A.; Calmant, S.

    2013-12-01

    We present the current state of the Hydroweb database as well as developments in progress. It provides offline water level time series on rivers, reservoirs and lakes based on altimetry data from several satellites (Topex/Poseidon, ERS, Jason-1&2, GFO and ENVISAT). The major developments in Hydroweb concerns the development of an operational data centre with automatic acquisition and processing of IGDR data for updating time series in near real time (both for lakes & rivers) and also use of additional remote sensing data, like satellite imagery allowing the calculation of lake's surfaces. A lake data centre is under development at the Legos in coordination with Hydrolare Project leaded by SHI (State Hydrological Institute of the Russian Academy of Science). It will provide the level-surface-volume variations of about 230 lakes and reservoirs, calculated through combination of various satellite images (Modis, Asar, Landsat, Cbers) and radar altimetry (Topex / Poseidon, Jason-1 & 2, GFO, Envisat, ERS2, AltiKa). The final objective is to propose a data centre fully based on remote sensing technique and controlled by in situ infrastructure for the Global Terrestrial Network for Lakes (GTN-L) under the supervision of WMO and GCOS. In a longer perspective, the Hydroweb database will integrate data from future missions (Jason-3, Jason-CS, Sentinel-3A/B) and finally will serve for the design of the SWOT mission. The products of hydroweb will be used as input data for simulation of the SWOT products (water height and surface variations of lakes and rivers). In the future, the SWOT mission will allow to monitor on a sub-monthly basis the worldwide lakes and reservoirs bigger than 250 * 250 m and Hydroweb will host water level and extent products from this

  6. The ERESE project: Bridging the gap between Digital Science Libraries and Education through Professional Development of Teachers and Database Development

    Science.gov (United States)

    Staudigel, H.; Helly, M.; Helly, J.; Koppers, A.; Massel-Symons, C.; Miller, S.

    2004-12-01

    The ERESE (Enduring Resources in Earth Science Education) project involves a close collaboration between teachers, librarians, educators, data archive managers and scientists in Earth sciences and information technology, to create a digital library environment for Earth science education. We report here on an ongoing (NSF-NSDL) project involving teachers' professional development in the pedagogy of plate tectonics in middle and high schools. This work included efforts in scientific database development in terms of contents and search tools, the development of an inquiry based learning approach, a two week professional development workshop attended by 15 teachers from across the nation, a classroom implementation of lesson plans developed by the teachers at the workshop and an evaluation/validation process for the success of their pedagogic approaches. This ERESE project offers a novel path for both science teaching and professional outreach for scientists, and includes four key components: (1) A true, long-term research partnership between educators and scientists, guiding each other with respect to the authenticity of the science taught and the educational soundness of a scientists' elaborations on science concepts. (2) Expansion of existing scientific databases through the use of metadata that tie scientific materials to a particular expert level and teaching goal. (3) The design of interfaces that make data accessible to the educational community. (4) The use of an inquiry based teaching approach that integrates the scientist-educator collaboration and the data base developments. Our pedagogic approach includes the development of a central hypotheses by the student in response to an initial general orientation and presentation of a well chosen central provocative phenomenon by the teacher. Then, the student develops a research plan that is devoted to address this hypothesis through the use of the materials provided by a scientific database allowing a students

  7. The UNC-Wisconsin Rhesus Macaque Neurodevelopment Database: A Structural MRI and DTI Database of Early Postnatal Development

    Science.gov (United States)

    Young, Jeffrey T.; Shi, Yundi; Niethammer, Marc; Grauer, Michael; Coe, Christopher L.; Lubach, Gabriele R.; Davis, Bradley; Budin, Francois; Knickmeyer, Rebecca C.; Alexander, Andrew L.; Styner, Martin A.

    2017-01-01

    Rhesus macaques are commonly used as a translational animal model in neuroimaging and neurodevelopmental research. In this report, we present longitudinal data from both structural and diffusion MRI images generated on a cohort of 34 typically developing monkeys from 2 weeks to 36 months of age. All images have been manually skull stripped and are being made freely available via an online repository for use by the research community. PMID:28210206

  8. Dissection of Genetic Effects of Quantitative Trait Loci(QTL) in Transgenic Cotton

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    When alien DNA inserts into cotton genome in multi-copy manner,several QTL in cotton genome are disrupted,which are called dQTL in this study.Transgenic mutant line is near-isogenic to its recipient which is divergent for the dQTL from remaining QTL.So,a set of data from a transgenic

  9. Genetic Dissection of QTL Associated with Grain Yield in Diverse Environments

    Directory of Open Access Journals (Sweden)

    Junli Zhang

    2014-12-01

    Full Text Available Wheat (Triticum aestivum L. breeding programs strive to increase grain yield; however, the progress is hampered due to its quantitative inheritance, low heritability, and confounding environmental effects. In the present study, a winter wheat population of 159 recombinant inbred lines (RILs was evaluated in six trials under rainfed, terminal drought, and fully-irrigated conditions, over four years. Quantitative trait locus/loci (QTL mapping was conducted for grain yield main effect (GY and the genotype × environment interaction (GEI effect. A total of 17 QTL were associated with GY and 13 QTL associated with GEI, and nine QTL were mapped in the flanking chromosomal regions for both GY and GEI. One major QTL Q.Gy.ui-1B.2, explaining up to 22% of grain yield, was identified in all six trials. Besides the additive effect of QTL associated with GY, interactions among QTL (QTL × QTL interaction, QTL × environment, and QTL × QTL × environment were also observed. When combining the interaction effects, QTL Q.Gy.ui-1B.2 along with other QTL explained up to 52% of the variation in grain yield over the six trials. This study suggests that QTL mapping of complex traits such as grain yield should include interaction effects of QTL and environments in marker-assisted selection.

  10. Genome databases

    Energy Technology Data Exchange (ETDEWEB)

    Courteau, J.

    1991-10-11

    Since the Genome Project began several years ago, a plethora of databases have been developed or are in the works. They range from the massive Genome Data Base at Johns Hopkins University, the central repository of all gene mapping information, to small databases focusing on single chromosomes or organisms. Some are publicly available, others are essentially private electronic lab notebooks. Still others limit access to a consortium of researchers working on, say, a single human chromosome. An increasing number incorporate sophisticated search and analytical software, while others operate as little more than data lists. In consultation with numerous experts in the field, a list has been compiled of some key genome-related databases. The list was not limited to map and sequence databases but also included the tools investigators use to interpret and elucidate genetic data, such as protein sequence and protein structure databases. Because a major goal of the Genome Project is to map and sequence the genomes of several experimental animals, including E. coli, yeast, fruit fly, nematode, and mouse, the available databases for those organisms are listed as well. The author also includes several databases that are still under development - including some ambitious efforts that go beyond data compilation to create what are being called electronic research communities, enabling many users, rather than just one or a few curators, to add or edit the data and tag it as raw or confirmed.

  11. Development of SRS.php, a Simple Object Access Protocol-based library for data acquisition from integrated biological databases.

    Science.gov (United States)

    Barbosa-Silva, A; Pafilis, E; Ortega, J M; Schneider, R

    2007-12-11

    Data integration has become an important task for biological database providers. The current model for data exchange among different sources simplifies the manner that distinct information is accessed by users. The evolution of data representation from HTML to XML enabled programs, instead of humans, to interact with biological databases. We present here SRS.php, a PHP library that can interact with the data integration Sequence Retrieval System (SRS). The library has been written using SOAP definitions, and permits the programmatic communication through webservices with the SRS. The interactions are possible by invoking the methods described in WSDL by exchanging XML messages. The current functions available in the library have been built to access specific data stored in any of the 90 different databases (such as UNIPROT, KEGG and GO) using the same query syntax format. The inclusion of the described functions in the source of scripts written in PHP enables them as webservice clients to the SRS server. The functions permit one to query the whole content of any SRS database, to list specific records in these databases, to get specific fields from the records, and to link any record among any pair of linked databases. The case study presented exemplifies the library usage to retrieve information regarding registries of a Plant Defense Mechanisms database. The Plant Defense Mechanisms database is currently being developed, and the proposal of SRS.php library usage is to enable the data acquisition for the further warehousing tasks related to its setup and maintenance.

  12. QTL Mapping of Chlorophyll Contents in Rice

    Institute of Scientific and Technical Information of China (English)

    SHEN Bo; ZHUANG Jie-yun; ZHANG Ke-qin; DAI Wei-min; LU Ye; FU Li-qing; DING Jia-ming; ZHENG Kang-le

    2007-01-01

    The objectives of this study were to investigate the genetic factors controlling the chlorophyll content of rice leaf using QTL analysis. A linkage map consisting of 207 DNA markers was constructed by using 247 recombinant inbred lines (RILs) derived from an indica-indica rice cross of Zhenshan97B×Milyang 46. In 2002 and 2003, the contents of chlorophyll a and b of the parents and the 247 RILs were measured on the top first leaf, top second leaf, and top third leaf, respectively. The software QTLMapper 1.6 was used to detect quantitative trait loci (QTLs), additive by environment (AE) interactions, and epistatic by environment (AAE) interactions. A total of eight QTLs in four intervals were detected to have significant additive effects on chlorophyll a and b contents at different leaf positions, with 1.96-9.77% of phenotypic variation explained by a single QTL, and two QTLs with significant AE interactions were detected. Epistasis analysis detected nine significant additive-by-additive interactions on chlorophyll a and b contents, and one pair of QTLs with significant AAE interactions was detected. On comparison with QTLs for yield traits detected in the same population, it was found in many cases that the QTLs for chlorophyll a and b contents and those for yield traits were located in the same chromosome intervals.

  13. Developing a comprehensive database management system for organization and evaluation of mammography datasets.

    Science.gov (United States)

    Wu, Yirong; Rubin, Daniel L; Woods, Ryan W; Elezaby, Mai; Burnside, Elizabeth S

    2014-01-01

    We aimed to design and develop a comprehensive mammography database system (CMDB) to collect clinical datasets for outcome assessment and development of decision support tools. A Health Insurance Portability and Accountability Act (HIPAA) compliant CMDB was created to store multi-relational datasets of demographic risk factors and mammogram results using the Breast Imaging Reporting and Data System (BI-RADS) lexicon. The CMDB collected both biopsy pathology outcomes, in a breast pathology lexicon compiled by extending BI-RADS, and our institutional breast cancer registry. The audit results derived from the CMDB were in accordance with Mammography Quality Standards Act (MQSA) audits and national benchmarks. The CMDB has managed the challenges of multi-level organization demanded by the complexity of mammography practice and lexicon development in pathology. We foresee that the CMDB will be useful for efficient quality assurance audits and development of decision support tools to improve breast cancer diagnosis. Our procedure of developing the CMDB provides a framework to build a detailed data repository for breast imaging quality control and research, which has the potential to augment existing resources.

  14. Deviance Information Criterion (DIC) in Bayesian Multiple QTL Mapping.

    Science.gov (United States)

    Shriner, Daniel; Yi, Nengjun

    2009-03-15

    Mapping multiple quantitative trait loci (QTL) is commonly viewed as a problem of model selection. Various model selection criteria have been proposed, primarily in the non-Bayesian framework. The deviance information criterion (DIC) is the most popular criterion for Bayesian model selection and model comparison but has not been applied to Bayesian multiple QTL mapping. A derivation of the DIC is presented for multiple interacting QTL models and calculation of the DIC is demonstrated using posterior samples generated by Markov chain Monte Carlo (MCMC) algorithms. The DIC measures posterior predictive error by penalizing the fit of a model (deviance) by its complexity, determined by the effective number of parameters. The effective number of parameters simultaneously accounts for the sample size, the cross design, the number and lengths of chromosomes, covariates, the number of QTL, the type of QTL effects, and QTL effect sizes. The DIC provides a computationally efficient way to perform sensitivity analysis and can be used to quantitatively evaluate if including environmental effects, gene-gene interactions, and/or gene-environment interactions in the prior specification is worth the extra parameterization. The DIC has been implemented in the freely available package R/qtlbim, which greatly facilitates the general usage of Bayesian methodology for genome-wide interacting QTL analysis.

  15. A Beowulf Class parallel remote-sensed image database retrieval system developed in ASSIST environment

    Science.gov (United States)

    Di Lecce, Vincenzo; Guerriero, Andrea; Guarino, I.

    2005-01-01

    Image databases are now currently utilized in a wide range of different areas, in particular, the development and application of remote sensing platforms result in the production of huge amounts of image data. One of the major problem in the practical implementation of a Content-based Image Retrieval (CBIR) for remotely sensed images is that the content-based indexing and searching process always requires extremely high computational power. On the other hand, the content-based image retrieval algorithms are very suitable for parallel computation as the algorithms can be broken into several data independent processes for running on a parallel computer. In this paper, we discuss the porting problem of a sequential application of remote sensed image retrieval in a parallel environment using the new paradigm of programming introduced by the birth of a new structured program languages (Assist 1.2) and compared performances to sequential and to commercial multiprocessors solutions.

  16. Development Method of Wireless Application Based on Wireless Makeup Language and Web Database Technology

    Institute of Scientific and Technical Information of China (English)

    ZHANG Li; SHAO Shi-huang; WANG Jian; YIN Mei-hua

    2002-01-01

    Wireless technology is a new emerging delivery networks and development scheme of wireless internet is given widely attention currently. In order to make international visitors to surge education website at any time, anywhere by mobile handsets. The communication method of web database, such as CGI, ISAPI, JDBC and so on have been aralyzed and a new Active Server Page &Wireless Makeup Language (ASP-WML) based approach is presented. The dynamical refreshment of the homepage of wireless website and the automatic query of main information have been realized. At last, the wireless website of Dong Hua University is taken as an example to testify the possibility of wireless website design which is mentioned above.

  17. Development of an electronic breast pathology database in a community health system

    Directory of Open Access Journals (Sweden)

    Heidi D Nelson

    2014-01-01

    Full Text Available Background: Health care systems rely on electronic patient data, yet access to breast tissue pathology results continues to depend on interpreting dictated free-text reports. Objective: The objective was to develop a method to electronically search and categorize pathologic diagnoses of patients′ breast tissue specimens from dictated free-text pathology reports in a large health system for multiple users including clinicians. Design: A database integrating existing patient-level administrative and clinical information for breast cancer screening and diagnostic services and a web-based application for comprehensive searching of pathology reports were developed by a health system team led by pathologists. The Breast Pathology Assessment Tool and Hierarchy for Diagnosis (BPATH-Dx provided search terms and guided electronic transcription of diagnoses from text fields on breast pathology clinical reports to standardized categories. Approach: Breast pathology encounters in the pathology database were matched with administrative data for 7332 women with breast tissue specimens obtained from an initial procedure in the health system from January 1, 2008 to December 31, 2011. Sequential queries of the pathology text based on BPATH-Dx categorized biopsies according to their worst pathological diagnosis, as is standard practice. Diagnoses ranged from invasive breast cancer (23.3%, carcinoma in situ (7.8%, atypical lesions (6.39%, proliferative lesions without atypia (27.9%, and nonproliferative lesions (34.7%, and were further classified into subcategories. A random sample of 5% of reports that were manually reviewed indicated 97.5% agreement. Conclusions: Sequential queries of free-text pathology reports guided by a standardized assessment tool in conjunction with a web-based search application provide an efficient and reproducible approach to accessing nonmalignant breast pathology diagnoses. This method advances the use of pathology data and

  18. Development of a Local Entomological Database for Education and Research using Simulation (Virtual Methods

    Directory of Open Access Journals (Sweden)

    Emad I. Khater

    2014-01-01

    Full Text Available Bioinformatics has been regarded as one of the rapidly-evolving fields with enormous impact on the history of life and biomedical sciences. It is an interdisciplinary science that integrates life sciences, mathematics and computer science in order to extract meaningful biological insights from large data sets of raw DNA and protein sequences. Our objective was the development of an entomogenomics database (provisionally named EntomDB for education and research in entomology (entomology is the science of insects. This DB includes DNA/protein sequence data selected from genomes of major insect models of importance in biology and biomedical research. EntomDB will represent a customized easy, interactive and self-learning resource tool for beginner users in poor-resource settings. This will enable the users to learn basic skills in bioinformatics and genomics, needlessly to search through the numerous databases currently available on the World-Wide Web with their complex interfaces and contents. EntomDB will help students and young researchers in studying the primary structure, splicing, and translation and predict function of different genes by using simple simulation methods. It is also designed to be adaptable to work off-line, in case no internet connection is available. EntomDB is primarily designed for entomology discipline; however, it can easily be adapted for other disciplines in life and biomedical sciences. EntomDB will have important educational and developmental outcomes in promoting bioinformatics learning in the developing world and provide affordable first-level training for advanced degree and research levels.

  19. Applying Agile Methods to the Development of a Community-Based Sea Ice Observations Database

    Science.gov (United States)

    Pulsifer, P. L.; Collins, J. A.; Kaufman, M.; Eicken, H.; Parsons, M. A.; Gearheard, S.

    2011-12-01

    Local and traditional knowledge and community-based monitoring programs are increasingly being recognized as an important part of establishing an Arctic observing network, and understanding Arctic environmental change. The Seasonal Ice Zone Observing Network (SIZONet, http://www.sizonet.org) project has implemented an integrated program for observing seasonal ice in Alaska. Observation and analysis by local sea ice experts helps track seasonal and inter-annual variability of the ice cover and its use by coastal communities. The ELOKA project (http://eloka-arctic.org) is collaborating with SIZONet on the development of a community accessible, Web-based application for collecting and distributing local observations. The SIZONet project is dealing with complicated qualitative and quantitative data collected from a growing number of observers in different communities while concurrently working to design a system that will serve a wide range of different end users including Arctic residents, scientists, educators, and other stakeholders with a need for sea ice information. The benefits of linking and integrating knowledge from communities and university-based researchers are clear, however, development of an information system in this multidisciplinary, multi-participant context is challenging. Participants are geographically distributed, have different levels of technical expertise, and have varying goals for how the system will be used. As previously reported (Pulsifer et al. 2010), new technologies have been used to deal with some of the challenges presented in this complex development context. In this paper, we report on the challenges and innovations related to working as a multi-disciplinary software development team. Specifically, we discuss how Agile software development methods have been used in defining and refining user needs, developing prototypes, and releasing a production level application. We provide an overview of the production application that

  20. Development of a Patient Condition Occurrence Frequency (PCOF) Database for Military, Humanitarian Assistance, and Disaster Relief Medical Data

    Science.gov (United States)

    2013-07-11

    ICD-9 category ICD-9 sub-category 345.2 Epilepsy , Petit Mal Status Disease Nervous System Disorders Seizures 345.3 Epilepsy , Grande Mal Status...events: floods, tsunamis, earthquakes, and hurricanes (a.k.a., cyclones or typhoons). Combat data were derived from Operation Enduring Freedom and...Operation Iraqi Freedom sources and entered into the hybrid database developed for this project. The hybrid database draws from several sources

  1. Developing an Automated Technique for Translating a Relational Database into an Equivalent Network One.

    Science.gov (United States)

    1984-12-01

    be superior in terms of the logical description of databases, whereas the network model is more ef- ficient of space and time, and provides a more...as more familiar low-level operators are available. The high-level operators are those of the relational algebra and equivalent languages. The number...Principles of Database Systems (Second Edition). Maryland: Coputer Science Press, 1982. 8. Cardenas , Alfonso F. Database Management Systems. Boston

  2. Predictive modeling using a nationally representative database to identify patients at risk of developing microalbuminuria.

    Science.gov (United States)

    Villa-Zapata, Lorenzo; Warholak, Terri; Slack, Marion; Malone, Daniel; Murcko, Anita; Runger, George; Levengood, Michael

    2016-02-01

    Predictive models allow clinicians to identify higher- and lower-risk patients and make targeted treatment decisions. Microalbuminuria (MA) is a condition whose presence is understood to be an early marker for cardiovascular disease. The aims of this study were to develop a patient data-driven predictive model and a risk-score assessment to improve the identification of MA. The 2007-2008 National Health and Nutrition Examination Survey (NHANES) was utilized to create a predictive model. The dataset was split into thirds; one-third was used to develop the model, while the other two-thirds were utilized for internal validation. The 2012-2013 NHANES was used as an external validation database. Multivariate logistic regression was performed to create the model. Performance was evaluated using three criteria: (1) receiver operating characteristic curves; (2) pseudo-R (2) values; and (3) goodness of fit (Hosmer-Lemeshow). The model was then used to develop a risk-score chart. A model was developed using variables for which there was a significant relationship. Variables included were systolic blood pressure, fasting glucose, C-reactive protein, blood urea nitrogen, and alcohol consumption. The model performed well, and no significant differences were observed when utilized in the validation datasets. A risk score was developed, and the probability of developing MA for each score was calculated. The predictive model provides new evidence about variables related with MA and may be used by clinicians to identify at-risk patients and to tailor treatment. The risk score developed may allow clinicians to measure a patient's MA risk.

  3. Trading Time with Space - Development of subduction zone parameter database for a maximum magnitude correlation assessment

    Science.gov (United States)

    Schaefer, Andreas; Wenzel, Friedemann

    2017-04-01

    Subduction zones are generally the sources of the earthquakes with the highest magnitudes. Not only in Japan or Chile, but also in Pakistan, the Solomon Islands or for the Lesser Antilles, subduction zones pose a significant hazard for the people. To understand the behavior of subduction zones, especially to identify their capabilities to produce maximum magnitude earthquakes, various physical models have been developed leading to a large number of various datasets, e.g. from geodesy, geomagnetics, structural geology, etc. There have been various studies to utilize this data for the compilation of a subduction zone parameters database, but mostly concentrating on only the major zones. Here, we compile the largest dataset of subduction zone parameters both in parameter diversity but also in the number of considered subduction zones. In total, more than 70 individual sources have been assessed and the aforementioned parametric data have been combined with seismological data and many more sources have been compiled leading to more than 60 individual parameters. Not all parameters have been resolved for each zone, since the data completeness depends on the data availability and quality for each source. In addition, the 3D down-dip geometry of a majority of the subduction zones has been resolved using historical earthquake hypocenter data and centroid moment tensors where available and additionally compared and verified with results from previous studies. With such a database, a statistical study has been undertaken to identify not only correlations between those parameters to estimate a parametric driven way to identify potentials for maximum possible magnitudes, but also to identify similarities between the sources themselves. This identification of similarities leads to a classification system for subduction zones. Here, it could be expected if two sources share enough common characteristics, other characteristics of interest may be similar as well. This concept

  4. Development and analysis of a meteorological database, Argonne National Laboratory, Illinois

    Science.gov (United States)

    Over, Thomas M.; Price, Thomas H.; Ishii, Audrey

    2010-01-01

    A database of hourly values of air temperature, dewpoint temperature, wind speed, and solar radiation from January 1, 1948, to September 30, 2003, primarily using data collected at the Argonne National Laboratory station, was developed for use in continuous-time hydrologic modeling in northeastern Illinois. Missing and apparently erroneous data values were replaced with adjusted values from nearby stations used as 'backup'. Temporal variations in the statistical properties of the data resulting from changes in measurement and data-storage methodologies were adjusted to match the statistical properties resulting from the data-collection procedures that have been in place since January 1, 1989. The adjustments were computed based on the regressions between the primary data series from Argonne National Laboratory and the backup series using data obtained during common periods; the statistical properties of the regressions were used to assign estimated standard errors to values that were adjusted or filled from other series. Each hourly value was assigned a corresponding data-source flag that indicates the source of the value and its transformations. An analysis of the data-source flags indicates that all the series in the database except dewpoint have a similar fraction of Argonne National Laboratory data, with about 89 percent for the entire period, about 86 percent from 1949 through 1988, and about 98 percent from 1989 through 2003. The dewpoint series, for which observations at Argonne National Laboratory did not begin until 1958, has only about 71 percent Argonne National Laboratory data for the entire period, about 63 percent from 1948 through 1988, and about 93 percent from 1989 through 2003, indicating a lower reliability of the dewpoint sensor. A basic statistical analysis of the filled and adjusted data series in the database, and a series of potential evapotranspiration computed from them using the computer program LXPET (Lamoreux Potential

  5. Development of an algorithm for identifying rheumatoid arthritis in the Korean National Health Insurance claims database.

    Science.gov (United States)

    Cho, Soo-Kyung; Sung, Yoon-Kyoung; Choi, Chan-Bum; Kwon, Jeong-Mi; Lee, Eui-Kyung; Bae, Sang-Cheol

    2013-12-01

    This study aimed to develop an identification algorithm for validating the International Classification of Diseases-Tenth diagnostic codes for rheumatoid arthritis (RA) in the Korean National Health Insurance (NHI) claims database. An individual copayment beneficiaries program for rare and intractable diseases, including seropositive RA (M05), began in South Korea in July 2009. Patients registered in this system pay only 10 % of their total medical costs, but registration requires an official report from a doctor documenting that the patient fulfills the 1987 ACR criteria. We regarded patients registered in this system as gold standard RA and examined the validity of several algorithms to define RA diagnosis using diagnostic codes and prescription data. We constructed nine algorithms using two highly specific prescriptions (positive predictive value >90 % and specificity >90 %) and one prescription with high sensitivity (>80 %) and accuracy (>75 %). A total of 59,823 RA patients were included in this validation study. Among them, 50,082 (83.7 %) were registered in the individual copayment beneficiaries program and considered true RA. We tested nine algorithms that incorporated two specific regimens [biologics and leflunomide alone, methotrexate plus leflunomide, or more than 3 disease-modifying anti-rheumatic drugs (DMARDs)] and one sensitive drug (any non-steroidal anti-inflammatory drug (NSAID), any DMARD, or any NSAID plus any DMARD). The algorithm that included biologics, more than 3 DMARDs, and any DMARD yielded the highest accuracy (91.4 %). Patients with RA diagnostic codes with prescription of biologics or any DMARD can be considered as accurate cases of RA in Korean NHI claims database.

  6. Development of Decadal (1985–1995–2005 Land Use and Land Cover Database for India

    Directory of Open Access Journals (Sweden)

    Parth S. Roy

    2015-02-01

    Full Text Available India has experienced significant Land-Use and Land-Cover Change (LULCC over the past few decades. In this context, careful observation and mapping of LULCC using satellite data of high to medium spatial resolution is crucial for understanding the long-term usage patterns of natural resources and facilitating sustainable management to plan, monitor and evaluate development. The present study utilizes the satellite images to generate national level LULC maps at decadal intervals for 1985, 1995 and 2005 using onscreen visual interpretation techniques with minimum mapping unit of 2.5 hectares. These maps follow the classification scheme of the International Geosphere Biosphere Programme (IGBP to ensure compatibility with other global/regional LULC datasets for comparison and integration. Our LULC maps with more than 90% overall accuracy highlight the changes prominent at regional level, i.e., loss of forest cover in central and northeast India, increase of cropland area in Western India, growth of peri-urban area, and relative increase in plantations. We also found spatial correlation between the cropping area and precipitation, which in turn confirms the monsoon dependent agriculture system in the country. On comparison with the existing global LULC products (GlobCover and MODIS, it can be concluded that our dataset has captured the maximum cumulative patch diversity frequency indicating the detailed representation that can be attributed to the on-screen visual interpretation technique. Comparisons with global LULC products (GlobCover and MODIS show that our dataset captures maximum landscape diversity, which is partly attributable to the on-screen visual interpretation techniques. We advocate the utility of this database for national and regional studies on land dynamics and climate change research. The database would be updated to 2015 as a continuing effort of this study.

  7. A Multiple QTL-Seq Strategy Delineates Potential Genomic Loci Governing Flowering Time in Chickpea

    Science.gov (United States)

    Srivastava, Rishi; Upadhyaya, Hari D.; Kumar, Rajendra; Daware, Anurag; Basu, Udita; Shimray, Philanim W.; Tripathi, Shailesh; Bharadwaj, Chellapilla; Tyagi, Akhilesh K.; Parida, Swarup K.

    2017-01-01

    Identification of functionally relevant potential genomic loci using an economical, simpler and user-friendly genomics-assisted breeding strategy is vital for rapid genetic dissection of complex flowering time quantitative trait in chickpea. A high-throughput multiple QTL-seq strategy was employed in two inter (Cicer arietinum desi accession ICC 4958 × C reticulatum wild accession ICC 17160)- and intra (ICC 4958 × C. arietinum kabuli accession ICC 8261)-specific RIL mapping populations to identify the major QTL genomic regions governing flowering time in chickpea. The whole genome resequencing discovered 1635117 and 592486 SNPs exhibiting differentiation between early- and late-flowering mapping parents and bulks, constituted by pooling the homozygous individuals of extreme flowering time phenotypic trait from each of two aforesaid RIL populations. The multiple QTL-seq analysis using these mined SNPs in two RIL mapping populations narrowed-down two longer (907.1 kb and 1.99 Mb) major flowering time QTL genomic regions into the high-resolution shorter (757.7 kb and 1.39 Mb) QTL intervals on chickpea chromosome 4. This essentially identified regulatory as well as coding (non-synonymous/synonymous) novel SNP allelic variants from two efl1 (early flowering 1) and GI (GIGANTEA) genes regulating flowering time in chickpea. Interestingly, strong natural allelic diversity reduction (88–91%) of two known flowering genes especially mapped at major QTL intervals as compared to that of background genomic regions (where no flowering time QTLs were mapped; 61.8%) in cultivated vis-à-vis wild Cicer gene pools was evident inferring the significant impact of evolutionary bottlenecks on these loci during chickpea domestication. Higher association potential of coding non-synonymous and regulatory SNP alleles mined from efl1 (36–49%) and GI (33–42%) flowering genes for early and late flowering time differentiation among chickpea accessions was evident. The robustness and

  8. Construction of chromosome segment substitution lines enables QTL mapping for flowering and morphological traits in Brassica rapa

    Directory of Open Access Journals (Sweden)

    Xiaonan eLi

    2015-06-01

    Full Text Available Chromosome segment substitution lines (CSSLs represent a powerful method for precise quantitative trait loci (QTL detection of complex agronomical traits in plants. In this study, we used a marker-assisted backcrossing strategy to develop a population consisting of 63 CSSLs, derived from backcrossing of the F1 generated from a cross between two Brassica rapa subspecies: ‘Chiifu’ (ssp. pekinensis, the Brassica A genome-represented line used as the donor, and ‘49caixin’ (ssp. parachinensis, a non-heading cultivar used as the recipient. The 63 CSSLs covered 87.95% of the B. rapa genome. Among them, 39 lines carried a single segment; 15 lines, two segments; and nine lines, three or more segments of the donor parent chromosomes. To verify the potential advantage of these CSSL lines, we used them to locate QTL for six morphology-related traits. A total of 58 QTL were located on eight chromosomes for all six traits: 17 for flowering time, 14 each for bolting time and plant height, 6 for plant diameter, 2 for leaf width, and 5 for flowering stalk diameter. Co-localized QTL were mainly distributed on eight genomic regions in A01, A02, A05, A06, A08, A09, and A10, present in the corresponding CSSLs. Moreover, new chromosomal fragments that harbored QTL were identified using the findings of previous studies. The CSSL population constructed in our study paves the way for fine mapping and cloning of candidate genes involved in late bolting, flowering, and plant architecture-related traits in B. rapa. Furthermore, it has great potential for future marker-aided gene/QTL pyramiding of other interesting traits in B. rapa breeding.

  9. Development of human protein reference database as an initial platform for approaching systems biology in humans

    DEFF Research Database (Denmark)

    Peri, Suraj; Navarro, J Daniel; Amanchy, Ramars

    2003-01-01

    Human Protein Reference Database (HPRD) is an object database that integrates a wealth of information relevant to the function of human proteins in health and disease. Data pertaining to thousands of protein-protein interactions, posttranslational modifications, enzyme/substrate relationships, di...

  10. Data-Based Decision-Making: Developing a Method for Capturing Teachers' Understanding of CBM Graphs

    Science.gov (United States)

    Espin, Christine A.; Wayman, Miya Miura; Deno, Stanley L.; McMaster, Kristen L.; de Rooij, Mark

    2017-01-01

    In this special issue, we explore the decision-making aspect of "data-based decision-making". The articles in the issue address a wide range of research questions, designs, methods, and analyses, but all focus on data-based decision-making for students with learning difficulties. In this first article, we introduce the topic of…

  11. Developing an Online Database of National and Sub-National Clean Energy Policies

    Energy Technology Data Exchange (ETDEWEB)

    Haynes, R.; Cross, S.; Heinemann, A.; Booth, S.

    2014-06-01

    The Database of State Incentives for Renewables and Efficiency (DSIRE) was established in 1995 to provide summaries of energy efficiency and renewable energy policies offered by the federal and state governments. This primer provides an overview of the major policy, research, and technical topics to be considered when creating a similar clean energy policy database and website.

  12. 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.

  13. Electronic asthma action plan database: asthma action plan development using Microsoft Access.

    Science.gov (United States)

    Mangold, Rita A; Salzman, Gary A

    2005-04-01

    We created a user-friendly database for use with asthma management consistent with the national guidelines for asthma. A database was designed by using Microsoft Access for the creation of asthma action plans that can be shared between providers caring for patients with asthma. This database and the use of "form entry" improved documentation of asthma action plans, which are increasingly being used to assess appropriateness of care. We currently have 400 asthma action plans in the database. These action plans can be queried to document compliance with accepted best practices. Asthma action plans can be created and stored in an Access database that is both user-friendly and that can be networked to provide more consistent asthma care.

  14. Rice genetic marker database: An identification of single nucleotide ...

    African Journals Online (AJOL)

    STORAGESEVER

    2009-07-06

    Jul 6, 2009 ... has become a necessary step. A genetic map is ... marker in mapping experiments and Quantitative Trait. Loci (QTL) ... The primer set (P1, P2,. P3 and P4) ... (RDBMS). The logical and physical schema of the database follow-.

  15. Near-saturated hydraulic conductivity: database development, meta-analysis and pedotransfer functions

    Science.gov (United States)

    Jarvis, Nicholas; Koestel, John; Messing, Ingmar; Lindahl, Anna

    2013-04-01

    Near-saturated hydraulic conductivity exerts a critical control on water flow and solute transport through the vadose zone, yet very little is known concerning how it is influenced by various soil properties and site factors and attributes. Starting from the 1980's, tension infiltrometers or disc permeameters have become an increasingly popular method to measure near-saturated hydraulic conductivity in undisturbed soil. In this presentation, we describe the development and organization of a large database of tension infiltrometer measurements (n>700) collated from the published literature. The raw datasets were standardized and summarized using a modified Kozeny-Carman model of near-saturated hydraulic conductivity (Jarvis, N.J. 2008. Near-saturated hydraulic properties of macroporous soils. Vadose Zone Journal, 7, 1302-1310). This model was found to accurately describe near-saturated conductivity for this large dataset (92% of cases had R2 values larger than 0.9). We will show the results of some initial analyses of the dataset, which show how hydraulic conductivity at pressure heads of -1 and -10 cm, as well as the slope of the near-saturated conductivity function, are affected by: i.) the choice of method to convert unconfined 3D infiltration to hydraulic conductivity, and ii.) interactions between soil properties such as texture and bulk density and site attributes such as land use and climate. We will also present some initial attempts to develop pedotransfer functions for parameters describing near-saturated hydraulic conductivity using the technique of random forests.

  16. The rice proteogenomics database OryzaPG-DB: development, expansion and new features

    Directory of Open Access Journals (Sweden)

    Mohamed eHelmy

    2012-04-01

    Full Text Available Proteogenomics is the utilization of large-scale proteome data in genome annotation refinement. Our recently developed rice proteogenomics database (OryzaPG-DB is the first sustainable resource for rice shotgun-based proteogenomics, providing information on peptides identified in rice protein digested peptides measured by means of liquid chromatography-tandem mass spectrometry (LC-MS/MS, and mapping of the peptides to their genomic origins and the genomic novelty of each peptide. The sequences of the peptides, proteins, cDNAs and genes, and the gene annotations are available for download in FASTA and GFF3 formats, respectively. Further, an annotated visualization of the gene models, corresponding peptides and genomic novelty is available for each gene, and MS/MS spectra are available for each peptide. In this article, we discuss the utilization of OryzaPG-DB and report on its development, recent content expansions and newly added features in the current version (OryzaPG-DB v1.1.

  17. Development of Database and Genomic Medicine for von Hippel-Lindau Disease in Japan

    Science.gov (United States)

    TAKAYANAGI, Shunsaku; MUKASA, Akitake; NAKATOMI, Hirofumi; KANNO, Hiroshi; KURATSU, Jun-ichi; NISHIKAWA, Ryo; MISHIMA, Kazuhiko; NATSUME, Atushi; WAKABAYASHI, Toshihiko; HOUKIN, Kiyohiro; TERASAKA, Shunsuke; YAO, Masahiro; SHINOHARA, Nobuo; SHUIN, Taro; SAITO, Nobuhito

    2017-01-01

    von Hippel-Lindau (VHL) disease is a hereditary tumor disease in which tumors develop in multiple organs, not only as hemangioblastomas (HBs) in the central nervous system, but also as kidney tumors, pheochromocytomas, and so on. Much about the epidemiology of VHL disease remained unknown until fairly recently in Japan, leading to calls for the establishment of a VHL disease epidemiological database in Japanese. To elucidate its epidemiology in Japan, the Japanese Ministry of Health, Labour and Welfare created the VHL Disease Study Group, which was put in charge of carrying out a nationwide epidemiological survey. The survey found close to 400 Japanese VHL disease patients throughout the country. Based on those results, the VHL Disease Study Group created the VHL Disease Treatment Guideline and also a severity classification. It is thought that the prognosis of VHL disease patients can be improved by performing genetic diagnosis and careful follow-up. Accordingly, the University of Tokyo Hospital put in place an in-hospital system for implementing genomic medicine for VHL disease based on genetic diagnosis. For that system, it was especially important to establish (I) accurate genetic diagnostic techniques, (II) genetic counseling capabilities for the patients and their families, and (III) a system of cooperation among multiple departments, including urology departments, and so on. Further elucidation of the epidemiology and the development of genomic medicine are needed to improve the treatment results of VHL disease in Japan. PMID:28070114

  18. Analysis of factors related to the development of ventilator-associated pneumonia: use of existing databases.

    Science.gov (United States)

    Byers, J F; Sole, M L

    2000-09-01

    To investigate factors related to ventilator-associated pneumonia to assist in the development and implementation of prevention strategies. A retrospective, descriptive design was used. Power analysis determined sample size. A consecutive sample of 120 patients admitted to the critical care units of a level I trauma center who were receiving mechanical ventilation was used. Data were obtained from clinical and financial databases. Variables included demographic data, causative organism of the pneumonia, medications, comorbid conditions, complications, duration of therapies, length of stay, and cost per case. The average patient was a 49-year-old man. The sample was 54.9% trauma patients, and the prevalence of ventilator-associated pneumonia was 16.7%. Significant factors included duration of intubation (r = 0.28, P = .005), mechanical ventilation (r = 0.26, P = .005), and tube feeding (r = 0.30, P = .001); trauma (phi = 0.24, P = .009); and use of histamine2 receptor antagonists (phi = -0.25, P = .006). The only variable that significantly increased the odds ratio for ventilator-associated pneumonia was trauma. The only variable that significantly decreased the odds ratio was use of histamine2 receptor antagonists. Patients in whom ventilator-associated pneumonia developed had a 16-day increase in length of stay (t = -2.68, P = .008), and a $29,369 increase in cost per case (t = -3.649, P = .000). These findings provide a baseline for discussions about potential changes in practice to help prevent ventilator-associated pneumonia.

  19. A gene frequency model for QTL mapping using Bayesian inference

    Directory of Open Access Journals (Sweden)

    Dekkers Jack CM

    2010-06-01

    Full Text Available Abstract Background Information for mapping of quantitative trait loci (QTL comes from two sources: linkage disequilibrium (non-random association of allele states and cosegregation (non-random association of allele origin. Information from LD can be captured by modeling conditional means and variances at the QTL given marker information. Similarly, information from cosegregation can be captured by modeling conditional covariances. Here, we consider a Bayesian model based on gene frequency (BGF where both conditional means and variances are modeled as a function of the conditional gene frequencies at the QTL. The parameters in this model include these gene frequencies, additive effect of the QTL, its location, and the residual variance. Bayesian methodology was used to estimate these parameters. The priors used were: logit-normal for gene frequencies, normal for the additive effect, uniform for location, and inverse chi-square for the residual variance. Computer simulation was used to compare the power to detect and accuracy to map QTL by this method with those from least squares analysis using a regression model (LSR. Results To simplify the analysis, data from unrelated individuals in a purebred population were simulated, where only LD information contributes to map the QTL. LD was simulated in a chromosomal segment of 1 cM with one QTL by random mating in a population of size 500 for 1000 generations and in a population of size 100 for 50 generations. The comparison was studied under a range of conditions, which included SNP density of 0.1, 0.05 or 0.02 cM, sample size of 500 or 1000, and phenotypic variance explained by QTL of 2 or 5%. Both 1 and 2-SNP models were considered. Power to detect the QTL for the BGF, ranged from 0.4 to 0.99, and close or equal to the power of the regression using least squares (LSR. Precision to map QTL position of BGF, quantified by the mean absolute error, ranged from 0.11 to 0.21 cM for BGF, and was better

  20. The South African National Vegetation Database: History, development, applications, problems and future

    Directory of Open Access Journals (Sweden)

    Leslie W. Powrie

    2012-01-01

    Full Text Available Southern Africa has been recognised as one of the most interesting and important areas of the world from an ecological and evolutionary point of view. The establishment and development of the National Vegetation Database (NVD of South Africa enabled South Africa to contribute to environmental planning and conservation management in this floristically unique region. In this paper, we aim to provide an update on the development of the NVD since it was last described, near its inception, more than a decade ago. The NVD was developed using the Turboveg software environment, and currently comprises 46 697 vegetation plots (relevés sharing 11 690 plant taxa and containing 968 943 species occurrence records. The NVD was primarily founded to serve vegetation classification and mapping goals but soon became recognised as an important tool in conservation assessment and target setting. The NVD has directly helped produce the National Vegetation Map, National Forest Type Classification, South African National Biodiversity Assessment and Forest Type Conservation Assessment. With further development of the NVD and more consistent handling of the legacy data (old data sets, the current limitations regarding certain types of application of the data should be significantly reduced. However, the use of the current NVD in multidisciplinary research has certainly not been fully explored. With the availability of new pools of well-trained vegetation surveyors, the NVD will continue to be purpose driven and serve the needs of biological survey in pursuit of sustainable use of the vegetation and flora resources of the southern African subcontinent.

  1. A fusion algorithm for joins based on collections in Odra-Object Database for Rapid Application development

    Directory of Open Access Journals (Sweden)

    Laika Satish

    2011-07-01

    Full Text Available In this paper we present the functionality of a currently under development database programming methodology called ODRA (Object Database for Rapid Application development which works fully on the object oriented principles. The database programming language is called SBQL (Stack based query language. We discuss some concepts in ODRA for e.g. the working of ODRA, how ODRA runtime environment operates, the interoperability of ODRA with .net and java .A view of ODRA's working with web services and xml. Currently the stages under development in ODRA are query optimization. So we present the prior work that is done in ODRA related to Query optimization and we also present a new fusion algorithm of how ODRA can deal with joins based on collections like set, lists, and arrays for query optimization.

  2. An Integrated Resource for Barley Linkage Map and Malting Quality QTL Alignment

    Directory of Open Access Journals (Sweden)

    Péter Szűcs

    2009-07-01

    Full Text Available Barley ( L. is an economically important model plant for genetics research. Barley is currently served by an increasingly comprehensive set of tools for genetic analysis that have recently been augmented by high-density genetic linkage maps built with gene-based single nucleotide polymorphisms (SNPs. These SNP-based maps need to be aligned with earlier generation maps, which were used for quantitative trait locus (QTL detection, by integrating multiple types of markers into a single map. A 2383 locus linkage map was developed using the Oregon Wolfe Barley (OWB Mapping Population to allow such alignments. The map is based on 1472 SNP, 722 DArT, and 189 prior markers which include morphological, simple sequence repeat (SSR, Restriction Fragment Length Polymorphism (RFLP, and sequence tagged site (STS loci. This new OWB map forms, therefore, a useful bridge between high-density SNP-only maps and prior QTL reports. The application of this bridge concept is shown using malting-quality QTLs from multiple mapping populations, as reported in the literature. This is the first step toward developing a Barley QTL Community Curation workbook for all types of QTLs and maps, on the GrainGenes website. The OWB-related resources are available at OWB Data and GrainGenes Tools (OWB-DGGT (.

  3. Development of a New Branded UK Food Composition Database for an Online Dietary Assessment Tool.

    Science.gov (United States)

    Carter, Michelle C; Hancock, Neil; Albar, Salwa A; Brown, Helen; Greenwood, Darren C; Hardie, Laura J; Frost, Gary S; Wark, Petra A; Cade, Janet E

    2016-08-05

    The current UK food composition tables are limited, containing ~3300 mostly generic food and drink items. To reflect the wide range of food products available to British consumers and to potentially improve accuracy of dietary assessment, a large UK specific electronic food composition database (FCDB) has been developed. A mapping exercise has been conducted that matched micronutrient data from generic food codes to "Back of Pack" data from branded food products using a semi-automated process. After cleaning and processing, version 1.0 of the new FCDB contains 40,274 generic and branded items with associated 120 macronutrient and micronutrient data and 5669 items with portion images. Over 50% of food and drink items were individually mapped to within 10% agreement with the generic food item for energy. Several quality checking procedures were applied after mapping including; identifying foods above and below the expected range for a particular nutrient within that food group and cross-checking the mapping of items such as concentrated and raw/dried products. The new electronic FCDB has substantially increased the size of the current, publically available, UK food tables. The FCDB has been incorporated into myfood24, a new fully automated online dietary assessment tool and, a smartphone application for weight loss.

  4. Development of a global fire weather database for 1980–2012

    Directory of Open Access Journals (Sweden)

    R. D. Field

    2014-10-01

    Full Text Available The Canadian Fire Weather Index (FWI System is the mostly widely used fire danger rating system in the world. We have developed a global database of daily, gridded FWI System calculations from 1980–2012. Input weather data were obtained from the NASA Modern Era Retrospective-Analysis for Research, and two different estimates of daily precipitation from rain gauges over land. FWI System Drought Code (DC calculations from the gridded datasets were compared to calculations from individual weather station data for a representative set of stations in North, Central and South America, Europe, Russia, Southeast Asia and Australia. Agreement between gridded calculations and the station-based calculations tended to be most different over the tropics for strictly MERRA-based calculations. This dataset can be used for analyzing historical relationships between fire weather and fire activity at continental and global scales, in identifying large-scale atmosphere–ocean controls on fire weather, and calibration of FWI-based fire prediction models.

  5. A population genetic database of cat breeds developed in coordination with a domestic cat STR multiplex.

    Science.gov (United States)

    Menotti-Raymond, Marilyn; David, Victor A; Weir, Bruce S; O'Brien, Stephen J

    2012-05-01

    A simple tandem repeat (STR) PCR-based typing system developed for the genetic individualization of domestic cat samples has been used to generate a population genetic database of domestic cat breeds. A panel of 10 tetranucleotide STR loci and a gender-identifying sequence tagged site (STS) were co-amplified in genomic DNA of 1043 individuals representing 38 cat breeds. The STR panel exhibits relatively high heterozygosity in cat breeds, with an average 10-locus heterozygosity of 0.71, which represents an average of 38 breed-specific heterozygosities for the 10-member panel. When the entire set of breed individuals was analyzed as a single population, a heterozygosity of 0.87 was observed. Heterozygosities obtained for the 10 loci range from 0.72 to 0.96. The power for genetic individualization of domestic cat samples of the multiplex is high, with a probability of match (p(m)) of 6.2E-14, using a conservative θ = 0.05.

  6. Development of a New Branded UK Food Composition Database for an Online Dietary Assessment Tool

    Science.gov (United States)

    Carter, Michelle C.; Hancock, Neil; Albar, Salwa A.; Brown, Helen; Greenwood, Darren C.; Hardie, Laura J.; Frost, Gary S.; Wark, Petra A.; Cade, Janet E.

    2016-01-01

    The current UK food composition tables are limited, containing ~3300 mostly generic food and drink items. To reflect the wide range of food products available to British consumers and to potentially improve accuracy of dietary assessment, a large UK specific electronic food composition database (FCDB) has been developed. A mapping exercise has been conducted that matched micronutrient data from generic food codes to “Back of Pack” data from branded food products using a semi-automated process. After cleaning and processing, version 1.0 of the new FCDB contains 40,274 generic and branded items with associated 120 macronutrient and micronutrient data and 5669 items with portion images. Over 50% of food and drink items were individually mapped to within 10% agreement with the generic food item for energy. Several quality checking procedures were applied after mapping including; identifying foods above and below the expected range for a particular nutrient within that food group and cross-checking the mapping of items such as concentrated and raw/dried products. The new electronic FCDB has substantially increased the size of the current, publically available, UK food tables. The FCDB has been incorporated into myfood24, a new fully automated online dietary assessment tool and, a smartphone application for weight loss. PMID:27527214

  7. Data growth and its impact on the SCOP database: new developments

    Energy Technology Data Exchange (ETDEWEB)

    Chandonia, John-Marc; Andreeva, Antonina; Howorth, Dave; Chandonia, John-Marc; Brenner, Steven E.; Hubbard, Tim J.P.; Chothia, Cyrus; Murzin, Alexey G.

    2007-11-13

    The Structural Classification of Proteins (SCOP) database is a comprehensive ordering of all proteins of known structure, according to their evolutionary and structural relationships. The SCOP hierarchy comprises the following levels: Species, Protein, Family, Superfamily, Fold and Class. While keeping the original classification scheme intact, we have changed the production of SCOP in order to cope with a rapid growth of new structural data and to facilitate the discovery of new protein relationships. We describe ongoing developments and new features implemented in SCOP. A new update protocol supports batch classification of new protein structuresby their detected relationships at Family and Superfamily levels in contrast to our previous sequential handling of new structural data by release date. We introduce pre-SCOP, a preview of the SCOP developmental version that enables earlier access to the information on new relationships. We also discuss the impact of worldwide Structural Genomics initiatives, which are producing new protein structures at an increasing rate, on the rates of discovery and growth of protein families and superfamilies. SCOP can be accessed at http://scop.mrc-lmb.cam.ac.uk/scop.

  8. Development and Characterization of Microsatellite Markers for the Pacific Abalone (Haliotis discus) via EST Database Mining

    Institute of Scientific and Technical Information of China (English)

    ZHAN Aibin; BAO Zhenmin; WANG Mingling; CHANG Dan; YUAN Jian; WANG Xiaolong; HU Xiaoli; LIANG Chengzhu; HU Jingjie

    2008-01-01

    The EST database of the Pacific abalone (Haliotis discus) was mined for developing mierosatellite markers. A total of 1476 EST sequences were registered in GenBank when data mining was performed. Fifty sequences (approximately 3.4%) were found to contain one or more mierosatellites. Based on the length and GC content of the flanking regions, duster analysis and BLASTN, 13 microsatellite-containing ESTs were selected for PCR primer design. The results showed that 10 out of 13 primer pairs could amplify seorable PCR products and showed polymorphism. The number of alleles ranged from 2 to 13 and the values of Hoand He varied from 0.1222 to 0.8611 and 0.2449 to 0.9311, respectively. No significant linkage disequilibrium (LD) between any pairs of these loci was found, and 6 of 10 loci conformed to the Hardy-Weinberg equilibrium (HWE). These EST-SSRs are therefore potential tools for studies of intraspecies variation and hybrid identification.

  9. Stories Matter: Conceptual Challenges in the Development of Oral History Database Building Software

    National Research Council Canada - National Science Library

    Erin Jessee; Stacey Zembrzycki; Steven High

    2011-01-01

    Stories Matter is new oral history database building software designed by an interdisciplinary team of oral historians and a software engineer affiliated with the Centre for Oral History and Digital...

  10. Stories Matter: Conceptual Challenges in the Development of Oral History Database Building Software

    National Research Council Canada - National Science Library

    Erin Jessee; Stacey Zembrzycki; Steven High

    2010-01-01

    Stories Matter is new oral history database building software designed by an interdisciplinary team of oral historians and a software engineer affiliated with the Centre for Oral History and Digital...

  11. The development of a new database of gas emissions: MAGA, a collaborative web environment for collecting data

    Science.gov (United States)

    Cardellini, C.; Chiodini, G.; Frigeri, A.; Bagnato, E.; Aiuppa, A.; McCormick, B.

    2013-12-01

    The data on volcanic and non-volcanic gas emissions available online are, as today, incomplete and most importantly, fragmentary. Hence, there is need for common frameworks to aggregate available data, in order to characterize and quantify the phenomena at various spatial and temporal scales. Building on the Googas experience we are now extending its capability, particularly on the user side, by developing a new web environment for collecting and publishing data. We have started to create a new and detailed web database (MAGA: MApping GAs emissions) for the deep carbon degassing in the Mediterranean area. This project is part of the Deep Earth Carbon Degassing (DECADE) research initiative, lunched in 2012 by the Deep Carbon Observatory (DCO) to improve the global budget of endogenous carbon from volcanoes. MAGA database is planned to complement and integrate the work in progress within DECADE in developing CARD (Carbon Degassing) database. MAGA database will allow researchers to insert data interactively and dynamically into a spatially referred relational database management system, as well as to extract data. MAGA kicked-off with the database set up and a complete literature survey on publications on volcanic gas fluxes, by including data on active craters degassing, diffuse soil degassing and fumaroles both from dormant closed-conduit volcanoes (e.g., Vulcano, Phlegrean Fields, Santorini, Nysiros, Teide, etc.) and open-vent volcanoes (e.g., Etna, Stromboli, etc.) in the Mediterranean area and Azores. For each geo-located gas emission site, the database holds images and description of the site and of the emission type (e.g., diffuse emission, plume, fumarole, etc.), gas chemical-isotopic composition (when available), gas temperature and gases fluxes magnitude. Gas sampling, analysis and flux measurement methods are also reported together with references and contacts to researchers expert of the site. Data can be accessed on the network from a web interface or as

  12. Mapping QTL influencing gastrointestinal nematode burden in Dutch Holstein-Friesian dairy cattle

    Directory of Open Access Journals (Sweden)

    Georges Michel

    2009-03-01

    Full Text Available Abstract Background Parasitic gastroenteritis caused by nematodes is only second to mastitis in terms of health costs to dairy farmers in developed countries. Sustainable control strategies complementing anthelmintics are desired, including selective breeding for enhanced resistance. Results and Conclusion To quantify and characterize the genetic contribution to variation in resistance to gastro-intestinal parasites, we measured the heritability of faecal egg and larval counts in the Dutch Holstein-Friesian dairy cattle population. The heritability of faecal egg counts ranged from 7 to 21% and was generally higher than for larval counts. We performed a whole genome scan in 12 paternal half-daughter groups for a total of 768 cows, corresponding to the ~10% most and least infected daughters within each family (selective genotyping. Two genome-wide significant QTL were identified in an across-family analysis, respectively on chromosomes 9 and 19, coinciding with previous findings in orthologous chromosomal regions in sheep. We identified six more suggestive QTL by within-family analysis. An additional 73 informative SNPs were genotyped on chromosome 19 and the ensuing high density map used in a variance component approach to simultaneously exploit linkage and linkage disequilibrium in an initial inconclusive attempt to refine the QTL map position.

  13. Development of a Reference Database for Particle-Induced Gamma-ray Emission spectroscopy

    Energy Technology Data Exchange (ETDEWEB)

    Dimitriou, P., E-mail: P.Dimitriou@iaea.org [International Atomic Energy Agency, Wagramerstrasse 5, A-1400 Vienna (Austria); Becker, H.-W. [Ruhr Universität Bochum, Gebäude NT05/130, Postfach 102148, Bochum 44721 (Germany); Bogdanović-Radović, I. [Department of Experimental Physics, Institute Rudjer Boskovic, Bijenicka Cesta 54, 10000 Zagreb (Croatia); Chiari, M. [Istituto Nazionale di Fisica Nucleare, Via Sansone 1, Sesto Fiorentino, 50019 Firenze (Italy); Goncharov, A. [Kharkov Institute of Physics and Technology, National Science Center, Akademicheskaya Str.1, Kharkov 61108 (Ukraine); Jesus, A.P. [Departamento de Física, Faculdade de Ciências e Tecnologia da Universidade Nova de Lisboa (Portugal); Kakuee, O. [Nuclear Science and Technology Research Institute, End of North Karegar Ave., PO Box 14395-836, Tehran (Iran, Islamic Republic of); Kiss, A.Z. [Institute of Nuclear Research (ATOMKI), Bem ter 18/c, PO Box 51, 4001 Debrecen (Hungary); Lagoyannis, A. [National Center of Scientific Research “Demokritos”, Agia Paraskevi, P.O. Box 60228, 15310 Athens (Greece); Räisänen, J. [Division of Materials Physics, Department of Physics, University of Helsinki, PO Box 43, 00014 University of Helsinki (Finland); Strivay, D. [Institut de Physique Nucleaire, Atomique et de Spectroscopie, Universite de Liège, Sart Tilman, B15 4000 Liège (Belgium); Zucchiatti, A. [Centro de Micro Análisis de Materiales, Universidad Autónoma de Madrid, Faraday 3, Madrid 28049 (Spain)

    2016-03-15

    Particle-Induced Gamma-ray Emission (PIGE) is a powerful analytical technique that exploits the interactions of rapid charged particles with nuclei located near a sample surface to determine the composition and structure of the surface regions of solids by measurement of characteristic prompt γ rays. The potential for depth profiling of this technique has long been recognized, however, the implementation has been limited owing to insufficient knowledge of the physical data and lack of suitable user-friendly computer codes for the applications. Although a considerable body of published data exists in the nuclear physics literature for nuclear reaction cross sections with γ rays in the exit channel, there is no up-to-date, comprehensive compilation specifically dedicated to IBA applications. A number of PIGE cross-section data had already been uploaded to the Ion Beam Analysis Nuclear Data Library (IBANDL) ( (http://www-nds.iaea.org/ibandl)) by members of the IBA community by 2011, however a preliminary survey of this body of unevaluated experimental data has revealed numerous discrepancies beyond the uncertainty limits reported by the authors. Using the resources and coordination provided by the IAEA, a concerted effort to improve the situation was made within the Coordinated Research Project on the Development of a Reference Database for PIGE spectroscopy, from 2011 to 2015. The aim of the CRP was to create a data library for Ion Beam Analysis that contains reliable and usable data on charged particle γ-ray emission cross sections that would be made freely available to the user community. As the CRP has reached its completion, we shall present its main achievements, including the results of nuclear cross-section evaluations and the development of a computer code that will become available to the public allowing for the implementation of a standardless PIGE technique.

  14. 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.

  15. Biological Databases

    Directory of Open Access Journals (Sweden)

    Kaviena Baskaran

    2013-12-01

    Full Text Available Biology has entered a new era in distributing information based on database and this collection of database become primary in publishing information. This data publishing is done through Internet Gopher where information resources easy and affordable offered by powerful research tools. The more important thing now is the development of high quality and professionally operated electronic data publishing sites. To enhance the service and appropriate editorial and policies for electronic data publishing has been established and editors of article shoulder the responsibility.

  16. Simultaneous Improvement and Genetic Dissection of Salt Tolerance of Rice (Oryza sativa L. by Designed QTL Pyramiding

    Directory of Open Access Journals (Sweden)

    Yunlong Pang

    2017-07-01

    Full Text Available Breeding of multi-stress tolerant rice varieties with higher grain yields is the best option to enhance the rice productivity of abiotic stresses prone areas. It also poses the greatest challenge to plant breeders to breed rice varieties for such stress prone conditions. Here, we carried out a designed QTL pyramiding experiment to develop high yielding “Green Super Rice” varieties with significantly improved tolerance to salt stress and grain yield. Using the F4 population derived from a cross between two selected introgression lines, we were able to develop six mostly homozygous promising high yielding lines with significantly improved salt tolerance and grain yield under optimal and/or saline conditions in 3 years. Simultaneous mapping using the same breeding population and tunable genotyping-by-sequencing technology, we identified three QTL affecting salt injury score and leaf chlorophyll content. By analyzing 32M SNP data of the grandparents and graphical genotypes of the parents, we discovered 87 positional candidate genes for salt tolerant QTL. According to their functional annotation, we inferred the most likely candidate genes. We demonstrated that designed QTL pyramiding is a powerful strategy for simultaneous improvement and genetic dissection of complex traits in rice.

  17. The Genetic Architecture of Flowering Time and Photoperiod Sensitivity in Maize as Revealed by QTL Review and Meta Analysis

    Institute of Scientific and Technical Information of China (English)

    Jie Xu; Tingzhao Rong; Yaxi Liu; Jian Liu; Moju Cao; Jing Wang; Hai Lan; Yunbi Xu; Yanli Lu; Guangtang Pan

    2012-01-01

    The control of flowering is not only important for reproduction,but also plays a key role in the processes of domestication and adaptation.To reveal the genetic architecture for flowering time and photoperiod sensitivity,a comprehensive evaluation of the relevant literature was performed and followed by meta analysis.A total of 25 synthetic consensus quantitative trait loci (QTL) and four hot-spot genomic regions were identified for photoperiod sensitivity including 11 genes related to photoperiod response or flower morphogenesis and development.Besides,a comparative analysis of the QTL for flowering time and photoperiod sensitivity highlighted the regions containing shared and unique QTL for the two traits.Candidate genes associated with maize flowering were identified through integrated analysis of the homologous genes for flowering time in plants and the consensus QTL regions for photoperiod sensitivity in maize (Zea mays L.).Our results suggest that the combination of literature review,meta-analysis and homologous blast is an efficient approach to identify new candidate genes and create a global view of the genetic architecture for maize photoperiodic flowering.Sequences of candidate genes can be used to develop molecular markers for various models of marker-assisted selection,such as marker-assisted recurrent selection and genomic selection that can contribute significantly to crop environmental adaptation.

  18. 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...

  19. Overview of Historical Earthquake Document Database in Japan and Future Development

    Science.gov (United States)

    Nishiyama, A.; Satake, K.

    2014-12-01

    In Japan, damage and disasters from historical large earthquakes have been documented and preserved. Compilation of historical earthquake documents started in the early 20th century and 33 volumes of historical document source books (about 27,000 pages) have been published. However, these source books are not effectively utilized for researchers due to a contamination of low-reliability historical records and a difficulty for keyword searching by characters and dates. To overcome these problems and to promote historical earthquake studies in Japan, construction of text database started in the 21 century. As for historical earthquakes from the beginning of the 7th century to the early 17th century, "Online Database of Historical Documents in Japanese Earthquakes and Eruptions in the Ancient and Medieval Ages" (Ishibashi, 2009) has been already constructed. They investigated the source books or original texts of historical literature, emended the descriptions, and assigned the reliability of each historical document on the basis of written age. Another database compiled the historical documents for seven damaging earthquakes occurred along the Sea of Japan coast in Honshu, central Japan in the Edo period (from the beginning of the 17th century to the middle of the 19th century) and constructed text database and seismic intensity data base. These are now publicized on the web (written only in Japanese). However, only about 9 % of the earthquake source books have been digitized so far. Therefore, we plan to digitize all of the remaining historical documents by the research-program which started in 2014. The specification of the data base will be similar for previous ones. We also plan to combine this database with liquefaction traces database, which will be constructed by other research program, by adding the location information described in historical documents. Constructed database would be utilized to estimate the distributions of seismic intensities and tsunami

  20. Wheat kernel dimensions: how do they contribute to kernel weight at an individual QTL level?

    Indian Academy of Sciences (India)

    Fa Cui; Anming Ding; Jun Li; Chunhua Zhao; Xingfeng Li; Deshun Feng; Xiuqin Wang; Lin Wang; Jurong Gao; Honggang Wang

    2011-12-01

    Kernel dimensions (KD) contribute greatly to thousand-kernel weight (TKW) in wheat. In the present study, quantitative trait loci (QTL) for TKW, kernel length (KL), kernel width (KW) and kernel diameter ratio (KDR) were detected by both conditional and unconditional QTL mapping methods. Two related F8:9 recombinant inbred line (RIL) populations, comprising 485 and 229 lines, respectively, were used in this study, and the trait phenotypes were evaluated in four environments. Unconditional QTL mapping analysis detected 77 additive QTL for four traits in two populations. Of these, 24 QTL were verified in at least three trials, and five of them were major QTL, thus being of great value for marker assisted selection in breeding programmes. Conditional QTL mapping analysis, compared with unconditional QTL mapping analysis, resulted in reduction in the number of QTL for TKW due to the elimination of TKW variations caused by its conditional traits; based on which we first dissected genetic control system involved in the synthetic process between TKW and KD at an individual QTL level. Results indicated that, at the QTL level, KW had the strongest influence on TKW, followed by KL, and KDR had the lowest level contribution to TKW. In addition, the present study proved that it is not all-inclusive to determine genetic relationships of a pairwise QTL for two related/causal traits based on whether they were co-located. Thus, conditional QTL mapping method should be used to evaluate possible genetic relationships of two related/causal traits.

  1. Written records of historical tsunamis in the northeastern South China Sea – challenges associated with developing a new integrated database

    Directory of Open Access Journals (Sweden)

    A. Y. A. Lau

    2010-09-01

    Full Text Available Comprehensive analysis of 15 previously published regional databases incorporating more than 100 sources leads to a newly revised historical tsunami database for the northeastern (NE region of the South China Sea (SCS including Taiwan. The validity of each reported historical tsunami event listed in our database is assessed by comparing and contrasting the information and descriptions provided in the other databases. All earlier databases suffer from errors associated with inaccuracies in translation between different languages, calendars and location names. The new database contains 205 records of "events" reported to have occurred between AD 1076 and 2009. We identify and investigate 58 recorded tsunami events in the region. The validity of each event is based on the consistency and accuracy of the reports along with the relative number of individual records for that event. Of the 58 events, 23 are regarded as "valid" (confirmed events, three are "probable" events and six are "possible". Eighteen events are considered "doubtful" and eight events "invalid". The most destructive tsunami of the 23 valid events occurred in 1867 and affected Keelung, northern Taiwan, killing at least 100 people. Inaccuracies in the historical record aside, this new database highlights the occurrence and geographical extent of several large tsunamis in the NE SCS region and allows an elementary statistical analysis of annual recurrence intervals. Based on historical records from 1951–2009 the probability of a tsunami (from any source affecting the region in any given year is relatively high (33.4%. However, the likelihood of a tsunami that has a wave height >1 m, and/or causes fatalities and damage to infrastructure occurring in the region in any given year is low (1–2%. This work indicates the need for further research using coastal stratigraphy and inundation modeling to help validate some of the historical accounts of tsunamis as well as adequately evaluate

  2. The Multiple-Institution Database for Investigating Engineering Longitudinal Development: An Experiential Case Study of Data Sharing and Reuse

    Science.gov (United States)

    Ohland, Matthew W.; Long, Russell A.

    2016-01-01

    Sharing longitudinal student record data and merging data from different sources is critical to addressing important questions being asked of higher education. The Multiple-Institution Database for Investigating Engineering Longitudinal Development (MIDFIELD) is a multi-institution, longitudinal, student record level dataset that is used to answer…

  3. Development and Demonstration of Material Properties Database and Software for the Simulation of Flow Properties in Cementitious Materials

    Energy Technology Data Exchange (ETDEWEB)

    Smith, F. [Savannah River Site (SRS), Aiken, SC (United States). Savannah River National Lab. (SRNL); Flach, G. [Savannah River Site (SRS), Aiken, SC (United States). Savannah River National Lab. (SRNL)

    2015-03-30

    This report describes work performed by the Savannah River National Laboratory (SRNL) in fiscal year 2014 to develop a new Cementitious Barriers Project (CBP) software module designated as FLOExcel. FLOExcel incorporates a uniform database to capture material characterization data and a GoldSim model to define flow properties for both intact and fractured cementitious materials and estimate Darcy velocity based on specified hydraulic head gradient and matric tension. The software module includes hydraulic parameters for intact cementitious and granular materials in the database and a standalone GoldSim framework to manipulate the data. The database will be updated with new data as it comes available. The software module will later be integrated into the next release of the CBP Toolbox, Version 3.0. This report documents the development efforts for this software module. The FY14 activities described in this report focused on the following two items that form the FLOExcel package; 1) Development of a uniform database to capture CBP data for cementitious materials. In particular, the inclusion and use of hydraulic properties of the materials are emphasized; and 2) Development of algorithms and a GoldSim User Interface to calculate hydraulic flow properties of degraded and fractured cementitious materials. Hydraulic properties are required in a simulation of flow through cementitious materials such as Saltstone, waste tank fill grout, and concrete barriers. At SRNL these simulations have been performed using the PORFLOW code as part of Performance Assessments for salt waste disposal and waste tank closure.

  4. Development of soil and terrain digital database for major food-growing regions of India for resource planning

    NARCIS (Netherlands)

    Chandran, P.; Tiwary, P.; Bhattacharyya, T.; Mandal, C.; Prasad, J.; Ray, S.K.; Sarkar, D.; Pal, D.K.; Dijkshoorn, J.A.; Batjes, N.H.; Bindraban, P.S.; Thakre, S.

    2014-01-01

    Soil information system in SOTER (soil and terrain digital database) framework is developed for the Indo-Gangetic Plains (IGP) and black soil regions (BSR) of India with the help of information from 842 georeferenced soil profiles including morphological, physical and chemical properties of soils in

  5. Development of a refill pattern method to measure polypharmacy in administrative claims databases.

    Science.gov (United States)

    Liu, Xinyue; Kubilis, Paul; Bussing, Regina; Winterstein, Almut G

    2016-12-01

    The purposes of the study were to develop a refill pattern method to identify polypharmacy in pharmacy billing records and to compare the method with traditional days' supply overlap algorithms. This method is characterized by the assessment of prescription refill pattern. Concomitant therapy is assumed when two drugs are dispensed repeatedly during the active days' supply of each other. We tested the refill pattern method in a simplified scenario in which two drugs (methylphenidate/dexmethylphenidate and atomoxetine) for attention deficit/hyperactivity disorder (ADHD) were considered. Children who had at least one prescription of methylphenidate/dexmethylphenidate or atomoxetine in 2008 were included for the calculation of 2-year prevalence of ADHD treatment polypharmacy. Results were compared with traditional method that requires a minimum overlap of 30, 60 or 90 days of filled prescriptions. We compared polypharmacy prevalence estimated by the two methods and explored reasons for disagreement. Among 131 385 children who had at least one prescription of methylphenidate/dexmethylphenidate or atomoxetine, the refill pattern method identified 4021 patients who had ADHD treatment polypharmacy (2-year prevalence = 3.1%). This prevalence estimate fell between those from a 30- to 60-day overlap method. The Cohen's kappa regarding determination of polypharmacy was 0.83, 0.92 and 0.80 considering 90-, 60- and 30-day overlap method, respectively. The refill pattern method can be used as another way to measure polypharmacy in administrative claims databases and can be adapted to a wide variety of research questions, diseases and study populations. Copyright © 2016 John Wiley & Sons, Ltd. Copyright © 2016 John Wiley & Sons, Ltd.

  6. Development of human protein reference database as an initial platform for approaching systems biology in humans.

    Science.gov (United States)

    Peri, Suraj; Navarro, J Daniel; Amanchy, Ramars; Kristiansen, Troels Z; Jonnalagadda, Chandra Kiran; Surendranath, Vineeth; Niranjan, Vidya; Muthusamy, Babylakshmi; Gandhi, T K B; Gronborg, Mads; Ibarrola, Nieves; Deshpande, Nandan; Shanker, K; Shivashankar, H N; Rashmi, B P; Ramya, M A; Zhao, Zhixing; Chandrika, K N; Padma, N; Harsha, H C; Yatish, A J; Kavitha, M P; Menezes, Minal; Choudhury, Dipanwita Roy; Suresh, Shubha; Ghosh, Neelanjana; Saravana, R; Chandran, Sreenath; Krishna, Subhalakshmi; Joy, Mary; Anand, Sanjeev K; Madavan, V; Joseph, Ansamma; Wong, Guang W; Schiemann, William P; Constantinescu, Stefan N; Huang, Lily; Khosravi-Far, Roya; Steen, Hanno; Tewari, Muneesh; Ghaffari, Saghi; Blobe, Gerard C; Dang, Chi V; Garcia, Joe G N; Pevsner, Jonathan; Jensen, Ole N; Roepstorff, Peter; Deshpande, Krishna S; Chinnaiyan, Arul M; Hamosh, Ada; Chakravarti, Aravinda; Pandey, Akhilesh

    2003-10-01

    Human Protein Reference Database (HPRD) is an object database that integrates a wealth of information relevant to the function of human proteins in health and disease. Data pertaining to thousands of protein-protein interactions, posttranslational modifications, enzyme/substrate relationships, disease associations, tissue expression, and subcellular localization were extracted from the literature for a nonredundant set of 2750 human proteins. Almost all the information was obtained manually by biologists who read and interpreted >300,000 published articles during the annotation process. This database, which has an intuitive query interface allowing easy access to all the features of proteins, was built by using open source technologies and will be freely available at http://www.hprd.org to the academic community. This unified bioinformatics platform will be useful in cataloging and mining the large number of proteomic interactions and alterations that will be discovered in the postgenomic era.

  7. Development of Comprehensive Devnagari Numeral and Character Database for Offline Handwritten Character Recognition

    Directory of Open Access Journals (Sweden)

    Vikas J. Dongre

    2012-01-01

    Full Text Available In handwritten character recognition, benchmark database plays an important role in evaluating the performance of various algorithms and the results obtained by various researchers. In Devnagari script, there is lack of such official benchmark. This paper focuses on the generation of offline benchmark database for Devnagari handwritten numerals and characters. The present work generated 5137 and 20305 isolated samples for numeral and character database, respectively, from 750 writers of all ages, sex, education, and profession. The offline sample images are stored in TIFF image format as it occupies less memory. Also, the data is presented in binary level so that memory requirement is further reduced. It will facilitate research on handwriting recognition of Devnagari script through free access to the researchers.

  8. Development of a Normative Database for Multifocal Electroretinography in the Context of a Multicenter Clinical Trial

    DEFF Research Database (Denmark)

    Simão, Sílvia; Costa, Miguel Ângelo; Sun, Jennifer K

    2017-01-01

    PURPOSE: The aim of this study is to present the largest normative database using multifocal electroretinography (mfERG) in the context of a multicenter clinical trial. METHODS: This investigational study included 156 eyes from 78 Caucasian subjects aged 45-70 years without known ophthalmic disease...... specialized training and certification. The main variables that could have influenced the results were considered in the analyses. RESULTS: The normative database was based on 111 eyes. The overall mean P1-implicit time (IT) was 33.94 ± 1.70 ms, and the mean P1 amplitude was 30.58 ± 5.20 nV/deg2. Age....... CONCLUSIONS: This normative database can be used as a comparative index of expected normal values in the clinical setting and for examining the effect of studies testing neuroprotective agents....

  9. Identification of candidate genes for prostate cancer-risk SNPs utilizing a normal prostate tissue eQTL data set

    Science.gov (United States)

    Thibodeau, S. N.; French, A. J.; McDonnell, S. K.; Cheville, J.; Middha, S.; Tillmans, L.; Riska, S.; Baheti, S.; Larson, M. C.; Fogarty, Z.; Zhang, Y.; Larson, N.; Nair, A.; O'Brien, D.; Wang, L.; Schaid, D J.

    2015-01-01

    Multiple studies have identified loci associated with the risk of developing prostate cancer but the associated genes are not well studied. Here we create a normal prostate tissue-specific eQTL data set and apply this data set to previously identified prostate cancer (PrCa)-risk SNPs in an effort to identify candidate target genes. The eQTL data set is constructed by the genotyping and RNA sequencing of 471 samples. We focus on 146 PrCa-risk SNPs, including all SNPs in linkage disequilibrium with each risk SNP, resulting in 100 unique risk intervals. We analyse cis-acting associations where the transcript is located within 2 Mb (±1 Mb) of the risk SNP interval. Of all SNP–gene combinations tested, 41.7% of SNPs demonstrate a significant eQTL signal after adjustment for sample histology and 14 expression principal component covariates. Of the 100 PrCa-risk intervals, 51 have a significant eQTL signal and these are associated with 88 genes. This study provides a rich resource to study biological mechanisms underlying genetic risk to PrCa. PMID:26611117

  10. 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

  11. Development and implementation of a custom integrated database with dashboards to assist with hematopathology specimen triage and traffic

    Directory of Open Access Journals (Sweden)

    Elizabeth M Azzato

    2014-01-01

    Full Text Available Background: At some institutions, including ours, bone marrow aspirate specimen triage is complex, with hematopathology triage decisions that need to be communicated to downstream ancillary testing laboratories and many specimen aliquot transfers that are handled outside of the laboratory information system (LIS. We developed a custom integrated database with dashboards to facilitate and streamline this workflow. Methods: We developed user-specific dashboards that allow entry of specimen information by technologists in the hematology laboratory, have custom scripting to present relevant information for the hematopathology service and ancillary laboratories and allow communication of triage decisions from the hematopathology service to other laboratories. These dashboards are web-accessible on the local intranet and accessible from behind the hospital firewall on a computer or tablet. Secure user access and group rights ensure that relevant users can edit or access appropriate records. Results: After database and dashboard design, two-stage beta-testing and user education was performed, with the first focusing on technologist specimen entry and the second on downstream users. Commonly encountered issues and user functionality requests were resolved with database and dashboard redesign. Final implementation occurred within 6 months of initial design; users report improved triage efficiency and reduced need for interlaboratory communications. Conclusions: We successfully developed and implemented a custom database with dashboards that facilitates and streamlines our hematopathology bone marrow aspirate triage. This provides an example of a possible solution to specimen communications and traffic that are outside the purview of a standard LIS.

  12. QTL and QTL x Environment Effects on Agronomic and Nitrogen Acquisition Traits in Rice

    Institute of Scientific and Technical Information of China (English)

    Senapathy Senthilvel; Kunnummal Kurungara Vinod; Palaniappan Malarvizhi; Marappa Maheswaran

    2008-01-01

    Agricultural environments deteriorate due to excess nitrogen application.Breeding for low nitrogen responsive genotypes can reduce soil nitrogen input.Rice genotypes respond variably to soil available nitrogen.The present study attempted quantification of genotype x nitrogen level interaction and mapping of quantitative trait loci (QTLs) associated with nitrogen use efficiency (NUE) and other associated agronomic traits.Twelve parameters were observed across a set of 82 double haploid (DH) lines derived from IR64/Azucena.Three nitrogen regimes namely,native (0 kg/ha; no nitrogen applied),optimum (100 kg/ha) and high (200 kg/ha) replicated thrice were the environments.The parents and DH lines were significantly varying for all traits under different nitrogen regimes.All traits except plant height recorded significant genotype x environment interaction.Individual plant yield was positively correlated with nitrogen use efficiency and nitrogen uptake.Sixteen QTLs were detected by composite interval mapping.Eleven QTLs showed significant QTL x environment interactions.On chromosome 3,seven QTLs were detected associated with nitrogen use,plant yield and associated traits.A QTL region between markers RZ678,RZ574 and RZ284 was associated with nitrogen use and yield.This chromosomal region was enriched with expressed gene sequences of known key nitrogen assimilation genes.

  13. Development and Field Test of a Real-Time Database in the Korean Smart Distribution Management System

    Directory of Open Access Journals (Sweden)

    Sang-Yun Yun

    2014-03-01

    Full Text Available Recently, a distribution management system (DMS that can conduct periodical system analysis and control by mounting various applications programs has been actively developed. In this paper, we summarize the development and demonstration of a database structure that can perform real-time system analysis and control of the Korean smart distribution management system (KSDMS. The developed database structure consists of a common information model (CIM-based off-line database (DB, a physical DB (PDB for DB establishment of the operating server, a real-time DB (RTDB for real-time server operation and remote terminal unit data interconnection, and an application common model (ACM DB for running application programs. The ACM DB for real-time system analysis and control of the application programs was developed by using a parallel table structure and a link list model, thereby providing fast input and output as well as high execution speed of application programs. Furthermore, the ACM DB was configured with hierarchical and non-hierarchical data models to reflect the system models that increase the DB size and operation speed through the reduction of the system, of which elements were unnecessary for analysis and control. The proposed database model was implemented and tested at the Gochaing and Jeju offices using a real system. Through data measurement of the remote terminal units, and through the operation and control of the application programs using the measurement, the performance, speed, and integrity of the proposed database model were validated, thereby demonstrating that this model can be applied to real systems.

  14. Development of the DHQ II and C-DHQ II Nutrient & Food Group Database

    Science.gov (United States)

    The nutrient and food group database, created for analyzing the DHQ II, is based on a compilation of national 24-hour dietary recall data from the National Health and Nutrition Examination Surveys (NHANES) conducted in 2001-02, 2003-04, and 2005-06.

  15. Development of a consumer product ingredient database for chemical exposure screening and prioritization.

    Science.gov (United States)

    Goldsmith, M-R; Grulke, C M; Brooks, R D; Transue, T R; Tan, Y M; Frame, A; Egeghy, P P; Edwards, R; Chang, D T; Tornero-Velez, R; Isaacs, K; Wang, A; Johnson, J; Holm, K; Reich, M; Mitchell, J; Vallero, D A; Phillips, L; Phillips, M; Wambaugh, J F; Judson, R S; Buckley, T J; Dary, C C

    2014-03-01

    Consumer products are a primary source of chemical exposures, yet little structured information is available on the chemical ingredients of these products and the concentrations at which ingredients are present. To address this data gap, we created a database of chemicals in consumer products using product Material Safety Data Sheets (MSDSs) publicly provided by a large retailer. The resulting database represents 1797 unique chemicals mapped to 8921 consumer products and a hierarchy of 353 consumer product "use categories" within a total of 15 top-level categories. We examine the utility of this database and discuss ways in which it will support (i) exposure screening and prioritization, (ii) generic or framework formulations for several indoor/consumer product exposure modeling initiatives, (iii) candidate chemical selection for monitoring near field exposure from proximal sources, and (iv) as activity tracers or ubiquitous exposure sources using "chemical space" map analyses. Chemicals present at high concentrations and across multiple consumer products and use categories that hold high exposure potential are identified. Our database is publicly available to serve regulators, retailers, manufacturers, and the public for predictive screening of chemicals in new and existing consumer products on the basis of exposure and risk.

  16. The Recovery Care and Treatment Center: A Database Design and Development Case

    Science.gov (United States)

    Harris, Ranida B.; Vaught, Kara L.

    2008-01-01

    The advantages of active learning methodologies have been suggested and empirically shown by a number of IS educators. Case studies are one such teaching technique that offers students the ability to think analytically, apply material learned, and solve a real-world problem. This paper presents a case study designed to be used in a database design…

  17. Freshwater Biological Traits Database (Final Report)

    Science.gov (United States)

    EPA announced the release of the final report, Freshwater Biological Traits Database. This report discusses the development of a database of freshwater biological traits. The database combines several existing traits databases into an online format. The database is also...

  18. AGRONOMIC AND QUALITY QTL MAPPING IN SPRING WHEAT

    Directory of Open Access Journals (Sweden)

    Mohamed Mergoum

    2013-04-01

    Full Text Available Wheat (Triticum aestivum L. flour represents one of the primary sources of calories and proteins for the human diet. The increase in the wheat yield without losing its baking and milling quality is an important breeding objective. The use of QTL analysis is an expedient methodology to help breeders to face this multifaceted challenge. Here, a population of 129 recombinant inbred lines (RILs developed from a cross between ‘Steele-ND’ cultivar and ‘ND 735’ advanced line was used to evaluate several yield and quality traits and map the genomic regions controlling these traits. The phenotypic data were collected from field experiments conducted at four North Dakota (ND, USA environments. Transgressive segregation was observed for all traits, with RILs outperforming the most adapted parent and commercial cultivars. Using a linkage map of 392 markers, composite interval mapping identified a total of 13 environment-specific QTLs, all explaining large phenotypic variations (R2=16-44%. The genotypic values of these “reserve” alleles were directly used as criteria of selection in breeding programs.

  19. Consistent effects of a major QTL for thermal resistance in field-released Drosophila melanogaster

    DEFF Research Database (Denmark)

    Loeschcke, Volker; Kristensen, Torsten Nygård; Norry, Fabian M

    2011-01-01

    Molecular genetic markers can be used to identify quantitative trait loci (QTL) for thermal resistance and this has allowed characterization of a major QTL for knockdown resistance to high temperature in Drosophila melanogaster. The QTL showed trade-off associations with cold resistance under...

  20. Mapping with RAD (restriction-site associated DNA) markers to rapidly identify QTL for stem rust resistance in Lolium perenne.

    Science.gov (United States)

    Pfender, W F; Saha, M C; Johnson, E A; Slabaugh, M B

    2011-05-01

    A mapping population was created to detect quantitative trait loci (QTL) for resistance to stem rust caused by Puccinia graminis subsp. graminicola in Lolium perenne. A susceptible and a resistant plant were crossed to produce a pseudo-testcross population of 193 F(1) individuals. Markers were produced by the restriction-site associated DNA (RAD) process, which uses massively parallel and multiplexed sequencing of reduced-representation libraries. Additional simple sequence repeat (SSR) and sequence-tagged site (STS) markers were combined with the RAD markers to produce maps for the female (738 cM) and male (721 cM) parents. Stem rust phenotypes (number of pustules per plant) were determined in replicated greenhouse trials by inoculation with a field-collected, genetically heterogeneous population of urediniospores. The F(1) progeny displayed continuous distribution of phenotypes and transgressive segregation. We detected three resistance QTL. The most prominent QTL (qLpPg1) is located near 41 cM on linkage group (LG) 7 with a 2-LOD interval of 8 cM, and accounts for 30-38% of the stem rust phenotypic variance. QTL were detected also on LG1 (qLpPg2) and LG6 (qLpPg3), each accounting for approximately 10% of phenotypic variance. Alleles of loci closely linked to these QTL originated from the resistant parent for qLpPg1 and from both parents for qLpPg2 and qLpPg3. Observed quantitative nature of the resistance may be due to partial-resistance effects against all pathogen genotypes, or qualitative effects completely preventing infection by only some genotypes in the genetically mixed inoculum. RAD markers facilitated rapid construction of new genetic maps in this outcrossing species and will enable development of sequence-based markers linked to stem rust resistance in L. perenne.

  1. QTL mapping of agronomic waterlogging tolerance using recombinant inbred lines derived from tropical maize (Zea mays L) germplasm.

    Science.gov (United States)

    Zaidi, Pervez Haider; Rashid, Zerka; Vinayan, Madhumal Thayil; Almeida, Gustavo Dias; Phagna, Ramesh Kumar; Babu, Raman

    2015-01-01

    Waterlogging is an important abiotic stress constraint that causes significant yield losses in maize grown throughout south and south-east Asia due to erratic rainfall patterns. The most economic option to offset the damage caused by waterlogging is to genetically incorporate tolerance in cultivars that are grown widely in the target agro-ecologies. We assessed the genetic variation in a population of recombinant inbred lines (RILs) derived from crossing a waterlogging tolerant line (CAWL-46-3-1) to an elite but sensitive line (CML311-2-1-3) and observed significant range of variation for grain yield (GY) under waterlogging stress along with a number of other secondary traits such as brace roots (BR), chlorophyll content (SPAD), % stem and root lodging (S&RL) among the RILs. Significant positive correlation of GY with BR and SPAD and negative correlation with S&RL indicated the potential use of these secondary traits in selection indices under waterlogged conditions. RILs were genotyped with 331 polymorphic single nucleotide polymorphism (SNP) markers using KASP (Kompetitive Allele Specific PCR) Platform. QTL mapping revealed five QTL on chromosomes 1, 3, 5, 7 and 10, which together explained approximately 30% of phenotypic variance for GY based on evaluation of RIL families under waterlogged conditions, with effects ranging from 520 to 640 kg/ha for individual genomic regions. 13 QTL were identified for various secondary traits associated with waterlogging tolerance, each individually explaining from 3 to 14% of phenotypic variance. Of the 22 candidate genes with known functional domains identified within the physical intervals delimited by the flanking markers of the QTL influencing GY and other secondary traits, six have previously been demonstrated to be associated with anaerobic responses in either maize or other model species. A pair of flanking SNP markers has been identified for each of the QTL and high throughput marker assays were developed to facilitate

  2. QTL IciMapping:Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations

    Institute of Scientific and Technical Information of China (English)

    Lei; Meng; Huihui; Li; Luyan; Zhang; Jiankang; Wang

    2015-01-01

    QTL Ici Mapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci(QTL) in biparental populations. Eight functionalities are integrated in this software package:(1) BIN: binning of redundant markers;(2) MAP: construction of linkage maps in biparental populations;(3) CMP: consensus map construction from multiple linkage maps sharing common markers;(4) SDL: mapping of segregation distortion loci;(5) BIP: mapping of additive, dominant, and digenic epistasis genes;(6) MET: QTL-by-environment interaction analysis;(7) CSL: mapping of additive and digenic epistasis genes with chromosome segment substitution lines; and(8) NAM: QTL mapping in NAM populations. Input files can be arranged in plain text, MS Excel 2003, or MS Excel 2007 formats. Output files have the same prefix name as the input but with different extensions. As examples, there are two output files in BIN, one for summarizing the identified bin groups and deleted markers in each bin, and the other for using the MAP functionality. Eight output files are generated by MAP, including summary of the completed linkage maps, Mendelian ratio test of individual markers, estimates of recombination frequencies, LOD scores, and genetic distances, and the input files for using the BIP, SDL,and MET functionalities. More than 30 output files are generated by BIP, including results at all scanning positions, identified QTL, permutation tests, and detection powers for up to six mapping methods. Three supplementary tools have also been developed to display completed genetic linkage maps, to estimate recombination frequency between two loci,and to perform analysis of variance for multi-environmental trials.

  3. QTL IciMapping:Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations

    Institute of Scientific and Technical Information of China (English)

    Lei Meng; Huihui Li; Luyan Zhang; Jiankang Wang

    2015-01-01

    QTL IciMapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci (QTL) in biparental populations. Eight func-tionalities are integrated in this software package: (1) BIN:binning of redundant markers;(2) MAP: construction of linkage maps in biparental populations; (3) CMP: consensus map construction from multiple linkage maps sharing common markers; (4) SDL: mapping of segregation distortion loci;(5) BIP:mapping of additive, dominant, and digenic epistasis genes;(6) MET:QTL-by-environment interaction analysis;(7) CSL:mapping of additive and digenic epistasis genes with chromosome segment substitution lines; and (8) NAM: QTL mapping in NAM populations. Input files can be arranged in plain text, MS Excel 2003, or MS Excel 2007 formats. Output files have the same prefix name as the input but with different extensions. As examples, there are two output files in BIN, one for summarizing the identified bin groups and deleted markers in each bin, and the other for using the MAP functionality. Eight output files are generated by MAP, including summary of the completed linkage maps, Mendelian ratio test of individual markers, estimates of recombination frequencies, LOD scores, and genetic distances, and the input files for using the BIP, SDL, and MET functionalities. More than 30 output files are generated by BIP, including results at all scanning positions, identified QTL, permutation tests, and detection powers for up to six mapping methods. Three supplementary tools have also been developed to display completed genetic linkage maps, to estimate recombination frequency between two loci, and to perform analysis of variance for multi-environmental trials.

  4. QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations

    Directory of Open Access Journals (Sweden)

    Lei Meng

    2015-06-01

    Full Text Available QTL IciMapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci (QTL in biparental populations. Eight functionalities are integrated in this software package: (1 BIN: binning of redundant markers; (2 MAP: construction of linkage maps in biparental populations; (3 CMP: consensus map construction from multiple linkage maps sharing common markers; (4 SDL: mapping of segregation distortion loci; (5 BIP: mapping of additive, dominant, and digenic epistasis genes; (6 MET: QTL-by-environment interaction analysis; (7 CSL: mapping of additive and digenic epistasis genes with chromosome segment substitution lines; and (8 NAM: QTL mapping in NAM populations. Input files can be arranged in plain text, MS Excel 2003, or MS Excel 2007 formats. Output files have the same prefix name as the input but with different extensions. As examples, there are two output files in BIN, one for summarizing the identified bin groups and deleted markers in each bin, and the other for using the MAP functionality. Eight output files are generated by MAP, including summary of the completed linkage maps, Mendelian ratio test of individual markers, estimates of recombination frequencies, LOD scores, and genetic distances, and the input files for using the BIP, SDL, and MET functionalities. More than 30 output files are generated by BIP, including results at all scanning positions, identified QTL, permutation tests, and detection powers for up to six mapping methods. Three supplementary tools have also been developed to display completed genetic linkage maps, to estimate recombination frequency between two loci, and to perform analysis of variance for multi-environmental trials.

  5. Physiological Information Database (PID)

    Science.gov (United States)

    EPA has developed a physiological information database (created using Microsoft ACCESS) intended to be used in PBPK modeling. The database contains physiological parameter values for humans from early childhood through senescence as well as similar data for laboratory animal spec...

  6. A genome-wide survey of maize lipid-related genes: candidate genes mining,digital gene expression profiling and colocation with QTL for maize kernel oil

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    Lipids play an important role in plants due to their abundance and their extensive participation in many metabolic processes.Genes involved in lipid metabolism have been extensively studied in Arabidopsis and other plant species.In this study,a total of 1003 maize lipid-related genes were cloned and annotated,including 42 genes with experimental validation,732 genes with full-length cDNA and protein sequences in public databases and 229 newly cloned genes.Ninety-seven maize lipid-related genes with tissue-preferential expression were discovered by in silico gene expression profiling based on 1984483 maize Expressed Sequence Tags collected from 182 cDNA libraries.Meanwhile,70 QTL clusters for maize kernel oil were identified,covering 34.5% of the maize genome.Fifty-nine (84%) QTL clusters co-located with at least one lipid-related gene,and the total number of these genes amounted to 147.Interestingly,thirteen genes with kernel-preferential expression profiles fell within QTL clusters for maize kernel oil content.All the maize lipid-related genes identified here may provide good targets for maize kernel oil QTL cloning and thus help us to better understand the molecular mechanism of maize kernel oil accumulation.

  7. Development and application of a database of food ingredient fraud and economically motivated adulteration from 1980 to 2010.

    Science.gov (United States)

    Moore, Jeffrey C; Spink, John; Lipp, Markus

    2012-04-01

    Food ingredient fraud and economically motivated adulteration are emerging risks, but a comprehensive compilation of information about known problematic ingredients and detection methods does not currently exist. The objectives of this research were to collect such information from publicly available articles in scholarly journals and general media, organize into a database, and review and analyze the data to identify trends. The results summarized are a database that will be published in the US Pharmacopeial Convention's Food Chemicals Codex, 8th edition, and includes 1305 records, including 1000 records with analytical methods collected from 677 references. Olive oil, milk, honey, and saffron were the most common targets for adulteration reported in scholarly journals, and potentially harmful issues identified include spices diluted with lead chromate and lead tetraoxide, substitution of Chinese star anise with toxic Japanese star anise, and melamine adulteration of high protein content foods. High-performance liquid chromatography and infrared spectroscopy were the most common analytical detection procedures, and chemometrics data analysis was used in a large number of reports. Future expansion of this database will include additional publically available articles published before 1980 and in other languages, as well as data outside the public domain. The authors recommend in-depth analyses of individual incidents. This report describes the development and application of a database of food ingredient fraud issues from publicly available references. The database provides baseline information and data useful to governments, agencies, and individual companies assessing the risks of specific products produced in specific regions as well as products distributed and sold in other regions. In addition, the report describes current analytical technologies for detecting food fraud and identifies trends and developments. © 2012 US Pharmacupia Journal of Food Science

  8. Robust Linear Models for Cis-eQTL Analysis.

    Directory of Open Access Journals (Sweden)

    Mattias Rantalainen

    Full Text Available Expression Quantitative Trait Loci (eQTL analysis enables characterisation of functional genetic variation influencing expression levels of individual genes. In outbread populations, including humans, eQTLs are commonly analysed using the conventional linear model, adjusting for relevant covariates, assuming an allelic dosage model and a Gaussian error term. However, gene expression data generally have noise that induces heavy-tailed errors relative to the Gaussian distribution and often include atypical observations, or outliers. Such departures from modelling assumptions can lead to an increased rate of type II errors (false negatives, and to some extent also type I errors (false positives. Careful model checking can reduce the risk of type-I errors but often not type II errors, since it is generally too time-consuming to carefully check all models with a non-significant effect in large-scale and genome-wide studies. Here we propose the application of a robust linear model for eQTL analysis to reduce adverse effects of deviations from the assumption of Gaussian residuals. We present results from a simulation study as well as results from the analysis of real eQTL data sets. Our findings suggest that in many situations robust models have the potential to provide more reliable eQTL results compared to conventional linear models, particularly in respect to reducing type II errors due to non-Gaussian noise. Post-genomic data, such as that generated in genome-wide eQTL studies, are often noisy and frequently contain atypical observations. Robust statistical models have the potential to provide more reliable results and increased statistical power under non-Gaussian conditions. The results presented here suggest that robust models should be considered routinely alongside other commonly used methodologies for eQTL analysis.

  9. Linear models for joint association and linkage QTL mapping

    Directory of Open Access Journals (Sweden)

    Fernando Rohan L

    2009-09-01

    Full Text Available Abstract Background Populational linkage disequilibrium and within-family linkage are commonly used for QTL mapping and marker assisted selection. The combination of both results in more robust and accurate locations of the QTL, but models proposed so far have been either single marker, complex in practice or well fit to a particular family structure. Results We herein present linear model theory to come up with additive effects of the QTL alleles in any member of a general pedigree, conditional to observed markers and pedigree, accounting for possible linkage disequilibrium among QTLs and markers. The model is based on association analysis in the founders; further, the additive effect of the QTLs transmitted to the descendants is a weighted (by the probabilities of transmission average of the substitution effects of founders' haplotypes. The model allows for non-complete linkage disequilibrium QTL-markers in the founders. Two submodels are presented: a simple and easy to implement Haley-Knott type regression for half-sib families, and a general mixed (variance component model for general pedigrees. The model can use information from all markers. The performance of the regression method is compared by simulation with a more complex IBD method by Meuwissen and Goddard. Numerical examples are provided. Conclusion The linear model theory provides a useful framework for QTL mapping with dense marker maps. Results show similar accuracies but a bias of the IBD method towards the center of the region. Computations for the linear regression model are extremely simple, in contrast with IBD methods. Extensions of the model to genomic selection and multi-QTL mapping are straightforward.

  10. National down syndrome patient database: Insights from the development of a multi-center registry study.

    Science.gov (United States)

    Lavigne, Jenifer; Sharr, Christianne; Ozonoff, Al; Prock, Lisa Albers; Baumer, Nicole; Brasington, Campbell; Cannon, Sheila; Crissman, Blythe; Davidson, Emily; Florez, Jose C; Kishnani, Priya; Lombardo, Angela; Lyerly, Jordan; McCannon, Jessica B; McDonough, Mary Ellen; Schwartz, Alison; Berrier, Kathryn L; Sparks, Susan; Stock-Guild, Kara; Toler, Tomi L; Vellody, Kishore; Voelz, Lauren; Skotko, Brian G

    2015-11-01

    The Down Syndrome Study Group (DSSG) was founded in 2012 as a voluntary, collaborative effort with the goal of supporting evidenced-based health care guidelines for individuals with Down syndrome (DS). Since then, 5 DS specialty clinics have collected prospective, longitudinal data on medical conditions that co-occur with DS. Data were entered by clinical staff or trained designees into the National Down Syndrome Patient Database, which we created using REDCap software. In our pilot year, we enrolled 663 participants across the U.S., ages 36 days to 70 years, from multiple racial and ethnic backgrounds. Here we report: (i) the demographic distribution of participants enrolled, (ii) a detailed account of our database infrastructure, and (iii) lessons learned during our pilot year to assist future researchers with similar goals for other patient populations.

  11. Database development of chemical thermodynamics of protactinium for performance assessment of HLW geological disposal system

    Energy Technology Data Exchange (ETDEWEB)

    Shibutani, Tomoki; Shibutani, Sanae; Yui, Mikazu [Power Reactor and Nuclear Fuel Development Corp., Tokai, Ibaraki (Japan). Tokai Works

    1998-03-01

    In the performance analysis of geological disposal system of high-level radioactive waste (HLW), solubilities of radioactive elements are estimated by thermodynamic calculation. The reliable thermodynamic database (TDB) is needed for solubility estimation. In this report, thermodynamic data for protactinium solid and aqueous species for performance assessment were selected. For the refinement of previous PNC in house thermodynamic database (PNC-TDB), existing literatures data were surveyed and reliable thermodynamic data were selected under consideration of the scientific defensibility and the consistency with the whole PNC-TDB. The estimated solubility using refined PNC-TDB was higher than measured value. We have confirmed the refined data-set of Pa to be conservative for solubility estimation of performance assessment. (author)

  12. Development of database on the distribution coefficient. 1. Collection of the distribution coefficient data

    Energy Technology Data Exchange (ETDEWEB)

    Takebe, Shinichi; Abe, Masayoshi [Japan Atomic Energy Research Inst., Tokai, Ibaraki (Japan). Tokai Research Establishment

    2001-03-01

    The distribution coefficient is very important parameter for environmental impact assessment on the disposal of radioactive waste arising from research institutes. The literature survey in the country was mainly carried out for the purpose of selecting the reasonable distribution coefficient value on the utilization of this value in the safety evaluation. This report was arranged much informations on the distribution coefficient for inputting to the database for each literature, and was summarized as a literature information data on the distribution coefficient. (author)

  13. Jet aircraft engine exhaust emissions database development: Year 1990 and 2015 scenarios

    Science.gov (United States)

    Landau, Z. Harry; Metwally, Munir; Vanalstyne, Richard; Ward, Clay A.

    1994-01-01

    Studies relating to environmental emissions associated with the High Speed Civil Transport (HSCT) military jet and charter jet aircraft were conducted by McDonnell Douglas Aerospace Transport Aircraft. The report includes engine emission results for baseline 1990 charter and military scenario and the projected jet engine emissions results for a 2015 scenario for a Mach 1.6 HSCT charter and military fleet. Discussions of the methodology used in formulating these databases are provided.

  14. Development, Use, and Impact of a Global Laboratory Database During the 2014 Ebola Outbreak in West Africa.

    Science.gov (United States)

    Durski, Kara N; Singaravelu, Shalini; Teo, Junxiong; Naidoo, Dhamari; Bawo, Luke; Jambai, Amara; Keita, Sakoba; Yahaya, Ali Ahmed; Muraguri, Beatrice; Ahounou, Brice; Katawera, Victoria; Kuti-George, Fredson; Nebie, Yacouba; Kohar, T Henry; Hardy, Patrick Jowlehpah; Djingarey, Mamoudou Harouna; Kargbo, David; Mahmoud, Nuha; Assefa, Yewondwossen; Condell, Orla; N'Faly, Magassouba; Van Gurp, Leon; Lamanu, Margaret; Ryan, Julia; Diallo, Boubacar; Daffae, Foday; Jackson, Dikena; Malik, Fayyaz Ahmed; Raftery, Philomena; Formenty, Pierre

    2017-06-15

    The international impact, rapid widespread transmission, and reporting delays during the 2014 Ebola outbreak in West Africa highlighted the need for a global, centralized database to inform outbreak response. The World Health Organization and Emerging and Dangerous Pathogens Laboratory Network addressed this need by supporting the development of a global laboratory database. Specimens were collected in the affected countries from patients and dead bodies meeting the case definitions for Ebola virus disease. Test results were entered in nationally standardized spreadsheets and consolidated onto a central server. From March 2014 through August 2016, 256343 specimens tested for Ebola virus disease were captured in the database. Thirty-one specimen types were collected, and a variety of diagnostic tests were performed. Regular analysis of data described the functionality of laboratory and response systems, positivity rates, and the geographic distribution of specimens. With data standardization and end user buy-in, the collection and analysis of large amounts of data with multiple stakeholders and collaborators across various user-access levels was made possible and contributed to outbreak response needs. The usefulness and value of a multifunctional global laboratory database is far reaching, with uses including virtual biobanking, disease forecasting, and adaption to other disease outbreaks.

  15. Aircraft parameter estimation — A tool for development of aerodynamic databases

    Indian Academy of Sciences (India)

    R V Jategaonkar; F Thielecke

    2000-04-01

    With the evolution of high performance modern aircraft and spiraling developmental and experimental costs, the importance of flight validated databases for flight control design applications and for flight simulators has increased significantly in the recent past. Ground-based and in-flight simulators are increasingly used not only for pilot training but also for other applications such asflight planning, envelope expansion, design and analysis of control laws, and handling qualitiesinvestigations. Most of these demand a high-fidelity aerodynamic database representing the flight vehicle. System identification methodology, evolved over the past three decades, provides a powerful and sophisticated tool to identify from flight data aerodynamic characteristics valid over the entire operational flight envelope. This paper briefly presents aircraft parameter estimation methods for both stable and unstable aircraft, highlighting the developmental work at the DLR Institute of Flight Mechanics. Various aspects of database identification and its validation are presented. Practical aspectslike the proper choice of integration and optimization methods as well as limitations of gradient approximation through finite-differences are brought out. Though the paper focuses on application of system identification methodsto flight vehicles, its use in other applications, like the modelling of inelastic deformations of metallic materials, is also presented. It is shown that there are many similar problems and several challenges requiring additional concepts and algorithms.

  16. The Strategies WDK: a graphical search interface and web development kit for functional genomics databases.

    Science.gov (United States)

    Fischer, Steve; Aurrecoechea, Cristina; Brunk, Brian P; Gao, Xin; Harb, Omar S; Kraemer, Eileen T; Pennington, Cary; Treatman, Charles; Kissinger, Jessica C; Roos, David S; Stoeckert, Christian J

    2011-01-01

    Web sites associated with the Eukaryotic Pathogen Bioinformatics Resource Center (EuPathDB.org) have recently introduced a graphical user interface, the Strategies WDK, intended to make advanced searching and set and interval operations easy and accessible to all users. With a design guided by usability studies, the system helps motivate researchers to perform dynamic computational experiments and explore relationships across data sets. For example, PlasmoDB users seeking novel therapeutic targets may wish to locate putative enzymes that distinguish pathogens from their hosts, and that are expressed during appropriate developmental stages. When a researcher runs one of the approximately 100 searches available on the site, the search is presented as a first step in a strategy. The strategy is extended by running additional searches, which are combined with set operators (union, intersect or minus), or genomic interval operators (overlap, contains). A graphical display uses Venn diagrams to make the strategy's flow obvious. The interface facilitates interactive adjustment of the component searches with changes propagating forward through the strategy. Users may save their strategies, creating protocols that can be shared with colleagues. The strategy system has now been deployed on all EuPathDB databases, and successfully deployed by other projects. The Strategies WDK uses a configurable MVC architecture that is compatible with most genomics and biological warehouse databases, and is available for download at code.google.com/p/strategies-wdk. Database URL: www.eupathdb.org.

  17. MPlus Database system

    Energy Technology Data Exchange (ETDEWEB)

    1989-01-20

    The MPlus Database program was developed to keep track of mail received. This system was developed by TRESP for the Department of Energy/Oak Ridge Operations. The MPlus Database program is a PC application, written in dBase III+'' and compiled with Clipper'' into an executable file. The files you need to run the MPLus Database program can be installed on a Bernoulli, or a hard drive. This paper discusses the use of this database.

  18. Development precept of CEFR database system%快堆工程数据库系统开发方案

    Institute of Scientific and Technical Information of China (English)

    陈树明

    2009-01-01

    This paper describes the meaning of the development of fast neturon nuclear power engineering database. Base on the instances of construction, commissioning and the needs of operation in the CEFR, gives the global database structure of CEFR applied for the operation and the nuclear engineering constructing. Simultaneously analyzing some difficulties, principles and needs in the development.%描述了快堆工程数据库系统开发的意义,并结合CEFR建设、调试情况和运行需要,给出在运行管理和工程建设管理两方面应用的数据库总体结构方案,同时分析开发过程需解决的问题、应遵循原则与要求.

  19. Bovine Genome Database: new tools for gleaning function from the Bos taurus genome.

    Science.gov (United States)

    Elsik, Christine G; Unni, Deepak R; Diesh, Colin M; Tayal, Aditi; Emery, Marianne L; Nguyen, Hung N; Hagen, Darren E

    2016-01-01

    We report an update of the Bovine Genome Database (BGD) (http://BovineGenome.org). The goal of BGD is to support bovine genomics research by providing genome annotation and data mining tools. We have developed new genome and annotation browsers using JBrowse and WebApollo for two Bos taurus genome assemblies, the reference genome assembly (UMD3.1.1) and the alternate genome assembly (Btau_4.6.1). Annotation tools have been customized to highlight priority genes for annotation, and to aid annotators in selecting gene evidence tracks from 91 tissue specific RNAseq datasets. We have also developed BovineMine, based on the InterMine data warehousing system, to integrate the bovine genome, annotation, QTL, SNP and expression data with external sources of orthology, gene ontology, gene interaction and pathway information. BovineMine provides powerful query building tools, as well as customized query templates, and allows users to analyze and download genome-wide datasets. With BovineMine, bovine researchers can use orthology to leverage the curated gene pathways of model organisms, such as human, mouse and rat. BovineMine will be especially useful for gene ontology and pathway analyses in conjunction with GWAS and QTL studies.

  20. Development of a database for prompt gamma-ray neutron activation analysis: Summary report of the third research coordination meeting

    Energy Technology Data Exchange (ETDEWEB)

    Lindstrom, Richard M.; Firestone, Richard B.; Pavi, ???

    2003-04-01

    The main discussions and conclusions from the Third Co-ordination Meeting on the Development of a Database for Prompt Gamma-ray Neutron Activation Analysis are summarized in this report. All results were reviewed in detail, and the final version of the TECDOC and the corresponding software were agreed upon and approved for preparation. Actions were formulated with the aim of completing the final version of the TECDOC and associated software by May 2003.

  1. Joint QTL analyses for partial resistance to Phytophthora sojae using six nested inbred populations with heterogeneous conditions

    Science.gov (United States)

    Partial resistance to Phytophthora sojae in soybean is controlled by multiple quantitative trait loci (QTL). With traditional QTL mapping approaches, power to detect these QTL, frequently of small effect, can be limited by population size. Joint linkage QTL analysis of nested recombinant inbred li...

  2. Cartographie fine de qtl de fertilite femelle chez les bovins laitiers franÇais

    OpenAIRE

    Ben Jemaa, Slim

    2009-01-01

    The aim of this thesis was to map finely female fertility (FF) QTL in the three main French dairy cattle breeds Prim'Holstein, Normande and Montbeliarde. The first step consisted in detecting QTL on 78 families in 12 genomic regions. Six FF QTL were found in Prim'Holstein and two in Normande breeds. In the second step of the study, the QTL on bovine chromosomes BTA01, BTA02, BTA03 and BTA21 were mapped on a sub-sample of 41 families and the confidence interval for BTA01 and BTA03 QTL was redu...

  3. Development of database systems for safety of repositories for disposal of radioactive wastes

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Yeong Hoon; Han, Jeong Sang; Shin, Hyeon Joon; Ham, Sang Won; Moon, Sang Kee [Yonsei Univ., Seoul (Korea, Republic of)

    1998-03-15

    In this study, contents and survey and supervision items in each part are selected to avoid overlap between different parts referring national lows, criterion, and guidance related to atomic energy. The items consist of climatology, hydrology, geology, seismology, engineering geology, geochemistry, and civil and social parts. Based on these items, general study and systematic control related to the stability of disposal sites os established and as specific region required with the properties that is similar to properties of radioactive waste disposal sites, Ulsan region equipped with LPG underground storage facility was selected and its datum were surveyed and inputted. So propriety of established database system was proved.

  4. Progress in the development of combustion kinetics databases for liquid fuels

    Directory of Open Access Journals (Sweden)

    Wing Tsang

    2006-01-01

    Full Text Available This paper describes the present situation regarding chemical kinetic databases for the simulation of the combustion of liquid fuels. Past work in the area is summarized. Much is known about the reactions of the smaller fragments from combustion processes. In order to describe real liquid fuels there is the need for an understanding of how the larger organic fuels are broken down to these fragments. The type of reactions that need to be considered are described and the breakdown of heptane is used as an example.

  5. Development of a Biomedical Database on the Medical Aspects of Chemical Defense

    Science.gov (United States)

    1988-12-01

    databases: Eric Biosis 1981 NTIS Social Scisearch Agricola 79 Psycinfo Chem Ind Notes Federal Index Claims/U.S. Patent Claims/U.S. Patent A Scisearch 84...CAT Enviro Perio Bib Intl Pharm ABS Life Sciences Collection Conf Papers Index PTS A/DM&T Scisearch 81-81 USPSD Scisearch 78-80 CIS Agricola 70-78... Business World Patents Index World Patents Index Remarc 1900-1939 Remarc 1940-1959 Remarc 1960-1969 Remarc 1970+ LC Marc Books in Print Wiley Catalog Online

  6. Mapping multiple QTL using linkage disequilibrium and linkage analysis information and multitrait data

    Directory of Open Access Journals (Sweden)

    Goddard Mike E

    2004-05-01

    Full Text Available Abstract A multi-locus QTL mapping method is presented, which combines linkage and linkage disequilibrium (LD information and uses multitrait data. The method assumed a putative QTL at the midpoint of each marker bracket. Whether the putative QTL had an effect or not was sampled using Markov chain Monte Carlo (MCMC methods. The method was tested in dairy cattle data on chromosome 14 where the DGAT1 gene was known to be segregating. The DGAT1 gene was mapped to a region of 0.04 cM, and the effects of the gene were accurately estimated. The fitting of multiple QTL gave a much sharper indication of the QTL position than a single QTL model using multitrait data, probably because the multi-locus QTL mapping reduced the carry over effect of the large DGAT1 gene to adjacent putative QTL positions. This suggests that the method could detect secondary QTL that would, in single point analyses, remain hidden under the broad peak of the dominant QTL. However, no indications for a second QTL affecting dairy traits were found on chromosome 14.

  7. Mapping carcass and meat quality QTL on Sus Scrofa chromosome 2 in commercial finishing pigs

    Directory of Open Access Journals (Sweden)

    van Kampen Tony A

    2009-01-01

    Full Text Available Abstract Quantitative trait loci (QTL affecting carcass and meat quality located on SSC2 were identified using variance component methods. A large number of traits involved in meat and carcass quality was detected in a commercial crossbred population: 1855 pigs sired by 17 boars from a synthetic line, which where homozygous (A/A for IGF2. Using combined linkage and linkage disequilibrium mapping (LDLA, several QTL significantly affecting loin muscle mass, ham weight and ham muscles (outer ham and knuckle ham and meat quality traits, such as Minolta-L* and -b*, ultimate pH and Japanese colour score were detected. These results agreed well with previous QTL-studies involving SSC2. Since our study is carried out on crossbreds, different QTL may be segregating in the parental lines. To address this question, we compared models with a single QTL-variance component with models allowing for separate sire and dam QTL-variance components. The same QTL were identified using a single QTL variance component model compared to a model allowing for separate variances with minor differences with respect to QTL location. However, the variance component method made it possible to detect QTL segregating in the paternal line (e.g. HAMB, the maternal lines (e.g. Ham or in both (e.g. pHu. Combining association and linkage information among haplotypes improved slightly the significance of the QTL compared to an analysis using linkage information only.

  8. Simultaneous QTL detection and genomic breeding value estimation using high density SNP chips

    Directory of Open Access Journals (Sweden)

    Veerkamp Roel F

    2010-03-01

    Full Text Available Abstract Background The simulated dataset of the 13th QTL-MAS workshop was analysed to i detect QTL and ii predict breeding values for animals without phenotypic information. Several parameterisations considering all SNP simultaneously were applied using Gibbs sampling. Results Fourteen QTL were detected at the different time points. Correlations between estimated breeding values were high between models, except when the model was used that assumed that all SNP effects came from one distribution. The model that used the selected 14 SNP found associated with QTL, gave close to unity correlations with the full parameterisations. Conclusions Nine out of 18 QTL were detected, however the six QTL for inflection point were missed. Models for genomic selection were indicated to be fairly robust, e.g. with respect to accuracy of estimated breeding values. Still, it is worthwhile to investigate the number QTL underlying the quantitative traits, before choosing the model used for genomic selection.

  9. Development and piloting of an exposure database and surveillance system for DOE cleanup operations. Department of Energy.

    Science.gov (United States)

    LaMontagne, Anthony D; Van Dyke, Michael V; Martyny, John W; Simpson, Mark W; Holwager, Lee Ann; Clausen, Bret M; Ruttenber, A James

    2002-01-01

    An industrial hygiene exposure database and surveillance system was developed in partnership between National Institute for Occupational Safety and Health (NIOSH)-funded independent investigators and practicing industrial hygienists at the Rocky Flats Environmental Technology Site (RFETS) in Golden, Colo. RFETS is a former U.S. Department of Energy nuclear weapons plant that is now in cleanup phase. This project is presented as a case study in the development of an exposure database and surveillance system in terms that are generalizable to most other industries and work contexts. Steps include gaining organizational support; defining system purpose and scope; defining database elements and coding; planning practical and efficient analysis strategies; incorporating reporting capabilities; and anticipating communication strategies that maximize the probability that surveillance findings will feed back to preventive applications. For each of these topics, the authors describe both general considerations as well as the specific choices made for this system. An important feature of the system is a two-tier task-coding scheme comprising 33 categories of task groups. Examples of grouped analyses of exposure data captured during the system pilot period demonstrate applications to exposure control, medical surveillance, and other preventive measures.

  10. Development of a Cost-Effective Database Software for Psychiatric Research: A Study From Tertiary Care Teaching Hospital

    Directory of Open Access Journals (Sweden)

    Sabu Karakkamandapam

    2010-10-01

    Full Text Available Background: Technological progression made drastic changes in health care. Still there is a growing concern about proper utilization of health information within hospitals for various research activities. Huge volumes of such health information in majority of hospitals are redundant due to lack of appropriate and cost-effective technological tools for retrieving relevant health information for research purpose. Objective: To develop a cost-effective and user-friendly computerized medical record database for psychiatry using available technology with the department. Methodology: Study performed at a tertiary care teaching hospital in Udupi district of South India. Various datasets from psychiatry medical records were utilized for the design and creation of database. A computerized database called PsyCase was developed with the help of technology available within the department. A 4612 patient’s data were entered into the PsyCase and subjected to various analyses. Results: Applications of PsyCase in various epidemiological studies were explored through performing numerous analyses with actual data. PsyCase was found effective in supporting psychiatric research as well as routine clinical and administrative activities. Conclusion: This study emphasizes need of appropriate use of technology available within a healthcare system to facilitate medical research in psychiatry and role of health information professional in such initiatives. Healthcare organization must focus on collective utilization of resources within the system to improve the utilization of health information for medical research.

  11. The Jungle Database Search Engine

    DEFF Research Database (Denmark)

    Bøhlen, Michael Hanspeter; Bukauskas, Linas; Dyreson, Curtis

    1999-01-01

    Information spread in in databases cannot be found by current search engines. A database search engine is capable to access and advertise database on the WWW. Jungle is a database search engine prototype developed at Aalborg University. Operating through JDBC connections to remote databases, Jungle...

  12. Developing genomic knowledge bases and databases to support clinical management: current perspectives.

    Science.gov (United States)

    Huser, Vojtech; Sincan, Murat; Cimino, James J

    2014-01-01

    Personalized medicine, the ability to tailor diagnostic and treatment decisions for individual patients, is seen as the evolution of modern medicine. We characterize here the informatics resources available today or envisioned in the near future that can support clinical interpretation of genomic test results. We assume a clinical sequencing scenario (germline whole-exome sequencing) in which a clinical specialist, such as an endocrinologist, needs to tailor patient management decisions within his or her specialty (targeted findings) but relies on a genetic counselor to interpret off-target incidental findings. We characterize the genomic input data and list various types of knowledge bases that provide genomic knowledge for generating clinical decision support. We highlight the need for patient-level databases with detailed lifelong phenotype content in addition to genotype data and provide a list of recommendations for personalized medicine knowledge bases and databases. We conclude that no single knowledge base can currently support all aspects of personalized recommendations and that consolidation of several current resources into larger, more dynamic and collaborative knowledge bases may offer a future path forward.

  13. Influence of outliers on QTL mapping for complex traits

    Institute of Scientific and Technical Information of China (English)

    Yousaf HAYAT; Jian YANG; Hai-ming XU; Jun ZHU

    2008-01-01

    A method was proposed for the detection of outliers and influential observations in the framework of a mixed linear model, prior to the quantitative trait locus (QTL) mapping analysis. We investigated the impact of outliers on QTL mapping for complex traits in a mouse BXD population, and observed that the dropping of outliers could provide the evidence of additional QTL and epistatic loci affecting the 1 stBrain-OB and the 2ndBrain-OB in a cross of the abovementioned population. The results could also reveal a remarkable increase in estimating heritabilities of QTL in the absence of outliers. In addition, simulations were conducted to investigate the detection powers and false discovery rates (FDRs) of QTLs in the presence and absence of outliers. The results suggested that the presence of a small proportion of outliers could increase the FDR and hence decrease the detection power of QTLs. A drastic increase could be obtained in the estimates of standard errors for position, additive and additivex environment interaction effects of QTLs in the presence of outliers.

  14. Influence of outliers on QTL mapping for complex traits.

    Science.gov (United States)

    Hayat, Yousaf; Yang, Jian; Xu, Hai-ming; Zhu, Jun

    2008-12-01

    A method was proposed for the detection of outliers and influential observations in the framework of a mixed linear model, prior to the quantitative trait locus (QTL) mapping analysis. We investigated the impact of outliers on QTL mapping for complex traits in a mouse BXD population, and observed that the dropping of outliers could provide the evidence of additional QTL and epistatic loci affecting the 1stBrain-OB and the 2ndBrain-OB in a cross of the abovementioned population. The results could also reveal a remarkable increase in estimating heritabilities of QTL in the absence of outliers. In addition, simulations were conducted to investigate the detection powers and false discovery rates (FDRs) of QTLs in the presence and absence of outliers. The results suggested that the presence of a small proportion of outliers could increase the FDR and hence decrease the detection power of QTLs. A drastic increase could be obtained in the estimates of standard errors for position, additive and additivex environment interaction effects of QTLs in the presence of outliers.

  15. Multiple Breed Validation of Five QTL Affecting Mastitis Resistance

    DEFF Research Database (Denmark)

    Vilkki, Johanna; Dolezal, Marlies A; Sahana, Goutam;

    (on BTA3, BTA6, BTA8, BTA19, and BTA27) agreed across the breeds, but no identical associated SNPs were detected. Higher power (imputation to bigger population samples) will be needed to confirm results. On BTA6 the results indicate several QTL within a 5 Mb region. The results provide a basis...

  16. Bayesian multi-QTL mapping for growth curve parameters

    DEFF Research Database (Denmark)

    Heuven, Henri C M; Janss, Luc L G

    2010-01-01

    . The locations of the QTLs for separate parameters were very close in some cases and probably caused the genetic correlation observed between ASYM and XMID and SCAL respectively. None of the QTL appeared on chromosome five. Conclusions Repeated observations on individuals were affected by at least nine QTLs...

  17. Database and data structure for the novel TOF-PET detector developed for J-PET project

    CERN Document Server

    Czerwiński, E; Bednarski, T; Białas, P; Kapłon, Ł; Kochanowski, A; Korcyl, G; Kowal, J; Kowalski, P; Kozik, T; Krzemień, W; Kubicz, E; Molenda, M; Moskal, P; Niedźwiecki, Sz; Pałka, M; Pawlik, M; Raczyński, L; Rudy, Z; Salabura, P; Sharma, N G; Silarski, M; Słomski, A; Smyrski, J; Strzelecki, A; Wieczorek, A; Wiślicki, W; Zoń, N

    2014-01-01

    The complexity of the hardware and the amount of data collected during the PET imaging process require application of modern methods of efficient data organization and processing. In this article we will discuss the data structures and the flow of collected data from the novel TOF-PET medical scanner which is being developed at the Jagiellonian University. The developed data format reflects: registration process of the gamma quanta emitted from positron-electron annihilation, Front-End Electronic (FEE) structure and required input information for the image reconstruction. In addition, the system database fulfills possible demands of the evolving J-PET project.

  18. 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.

  19. Development of a 20-locus fluorescent multiplex system as a valuable tool for national DNA database.

    Science.gov (United States)

    Jiang, Xianhua; Guo, Fei; Jia, Fei; Jin, Ping; Sun, Zhu

    2013-02-01

    The multiplex system allows the detection of 19 autosomal short tandem repeat (STR) loci [including all Combined DNA Index System (CODIS) STR loci as well as D2S1338, D6S1043, D12S391, D19S433, Penta D and Penta E] plus the sex-determining locus Amelogenin in a single reaction, comprising all STR loci in various commercial kits used in the China national DNA database (NDNAD). Primers are designed so that the amplicons are distributed ranging from 90 base pairs (bp) to 450 bp within a five-dye fluorescent design with the fifth dye reserved for the internal size standard. With 30 cycles, 125 pg to 2 ng DNA template showed optimal profiling result, while robust profiles could also be achieved by adjusting the cycle numbers for the DNA template beyond that optimal DNA input range. Mixture studies showed that 83% and 87% of minor alleles were detected at 9:1 and 1:9 ratios, respectively. When 4 ng of degraded DNA was digested by 2-min DNase and 1 ng undegraded DNA was added to 400 μM haematin, the complete profiles were still observed. Polymerase chain reaction (PCR)-based procedures were examined and optimized including the concentrations of primer set, magnesium and the Taq polymerase as well as volume, cycle number and annealing temperature. In addition, the system has been validated by 3000 bloodstain samples and 35 common case samples in line with the Chinese National Standards and Scientific Working Group on DNA Analysis Methods (SWGDAM) guidelines. The total probability of identity (TPI) can reach to 8×10(-24), where DNA database can be improved at the level of 10 million DNA profiles or more because the number of expected match is far from one person (4×10(-10)) and can be negligible. Further, our system also demonstrates its good performance in case samples and it will be an ideal tool for forensic DNA typing and databasing with potential application.

  20. Characterization of QTL for unique agronomic traits of new-plant-type rice varieties using introgression lines of IR64

    Directory of Open Access Journals (Sweden)

    Analiza G. Tagle

    2016-02-01

    Full Text Available To enhance the yield potential of an elite indica rice cultivar, an introgression (BC3-derived line of IR64, YTH288, was developed using a new-plant-type cultivar, IR66215-44-2-3, as a donor parent. YTH288 has agronomically valuable characteristics such as large panicles, few unproductive tillers, and large leaves inherited from NPT. To identify the genetic basis of these traits, we used 167 F2 plants derived from a cross between IR64 and YTH288 to conduct QTL analysis for five agronomic traits: days to heading (DTH, culm length (CL, flag leaf length (FLL, flag leaf width (FLW, and filled spikelet number per panicle (FSN. Six putative QTL were detected: four on chromosome 4 (for CL, FLL, FLW, and FSN and two on chromosome 2 (for DTH and FLL. All QTL with the IR66215-44-2-3 allele, except that for FLL on chromosome 2, had positive effects on each trait. To confirm the effects of these putative QTL, we developed NILs with the IR64 genetic background by marker-assisted selection. We observed significant differences in several agronomic traits between IR64 and NILs that carried these QTL on chromosomes 2 and 4. Additionally, four IR64-NILs carrying chromosomal segments derived from different NPT varieties on the long arm of chromosome 4 exhibited similar pleiotropic effects for unique agronomic traits. These NILs can be used as research materials for studying each trait and as breeding materials for yield improvement of indica rice cultivars. Abbreviations NPT, new plant type; QTL, quantitative trait loci (locus; GF, grain fertility; DTH, days to heading; CL, culm length; PL, panicle length; LL, leaf length; FLL, flag leaf length; LW, leaf width; FLW, flag leaf width; FSN, filled spikelet number per panicle; TSN, total spikelet number per panicle; PN, panicle number per plant; IRRI, International Rice Research Institute; NIL, near-isogenic line; IL, introgression line; SSR, simple sequence repeat; PCR, polymerase chain reaction

  1. A three dimensional children head database for acoustical research and development

    DEFF Research Database (Denmark)

    Harder, Stine; Paulsen, Rasmus Reinhold; Larsen, Martin;

    2013-01-01

    . The process consists of a regularized surface reconstruction step followed by an alignment step. Finally, a surface representation of the entire head is extracted using a triangulation of the zero-level iso-surface of the implicit volume. The process has been used to reconstruct the heads of children aged 10......Most computational-acoustic work within spatial hearing relies on head-related transfer functions from databases of measurements taken on adult humans or dummy heads. We aim to provide a set of 3D digital heads including children, from which head-related transfer functions can be computed instead...... by acquisition of multiple 3D surface scans of the same subject using a high-resolution photogrammetric scanner. Secondly, the scans are semi-automatically aligned and noise and incoherence is removed. This is followed by an iterative process where a volumetric implicit representation of the head is optimized...

  2. Developing and using a computerized database for music therapy in palliative medicine.

    Science.gov (United States)

    Gallagher, L M; Steele, A L

    2001-01-01

    The purpose of this paper is to describe the music therapy program at the Harry R. Horvitz Center for Palliative Medicine, to present different music therapy interventions that are used with individuals who have terminal illnesses, and to introduce initial findings from a pilot study of the effects of music therapy on an inpatient palliative medicine unit. For the first time, a computerized database has been designed to evaluate clinical practice by tracking music therapy intervention effectiveness on common symptoms. Measurement techniques included visual analogue scales and behavioural observation. Music therapy was shown to have a significant effect on common symptoms in advanced cancer patients, suggesting that it should be included in palliative medicine programs as an adjunct to symptom treatment.

  3. Development of a database for the prediction of phases in Pt-based Superalloys: Cr-Pt-Ru

    Institute of Scientific and Technical Information of China (English)

    A. Watson; L.A. Cornish; R. Süss

    2006-01-01

    Work has been ongoing in building a thermodynamic database for the prediction of phase equilibria in Pt-based superalloys. The alloys are being developed for high temperature applications in aggressive environments. The database will aid the design of alloys by enabling the calculation of the composition and proportions of phases present in alloys of differ ent compositions. In order to extend this database, a preliminary assessment of the Cr-Pt-Ru system has been undertaken,using a combination of Pandat and MTDATA software. As a first step, it was necessary to provide thermodynamic models for the three associated binary systems. Owing to a lack of thermodynamic information for these systems, the binary assessments were based on phase diagrams available in the literature. Using recent experimental phase equilibria data for the ternary system, a preliminary assessment of the Cr-Pt-Ru system has been produced. In this preliminary assessment, simplified models were employed for the L12 and sigma phases with a view to extending the descriptions as new experimental information becomes available.

  4. QTL consistency for agronomic traits across three generations and potential applications in popcorn

    Institute of Scientific and Technical Information of China (English)

    DONG Yong-bin; ZHANG Zhong-wei; SHI Qing-ling; WANG Qi-lei; ZHOU Qiang; DENG Fei; MA Zhi-yan; QIAO Da-he; LI Yu-ling

    2015-01-01

    Favorable agronomic traits are important to improve productivity of popcorn. In this study, a recombinant inbred line (RIL) population consisting of 258 lines was evaluated to identify quantitative trait loci (QTLs) for nine agronomic traits (plant height, ear height, top height (plant height subtracted ear height), top height/plant height, number of leaves above the top ear, leaf area, stalk diameter, number of tassel branches and the length of tassel) under three environments. Meta-anal-ysis was conducted then to integrate QTLs identiifed across three generations (RIL, F2:3 and BC2F2) developed from the same crosses. In total, 179 QTLs and 36 meta-QTLs (mQTL) were identiifed. The percentage of phenotypic variation (R2) explained by any single QTL varied from 3.86 to 28.4%, and 24 QTLs with contributions over 15%. Nine common QTLs located in the same or similar chromosome regions were detected across three generations. Five meta-QTLs were identiifed including QTLs in three independent studies. Seven important mQTLs were composed of 11–26 QTLs for 4–7 traits, respectively. Only 11 mQTLs were commonly identiifed in the same or similar chromosome regions across agronomic traits, popping characteristics (popping fold, popping volume and popping rate) and grain yield components (ear weight per plant, grain weight per plant, 100-grain weight, ear length, kernel number per row, ear diameter, row number per ear and kernel ratio) by meta-QTL analysis. In conclusion, we identiifed a list of QTLs, some of which with much higher contributions to agronomic traits should be valuable for further study in improving both popping characteristics and grain yield components in popcorn.

  5. The phenotypic difference discards sib-pair QTL linkage information

    Energy Technology Data Exchange (ETDEWEB)

    Wright, F.A. [Univ. of California, San Diego, CA (United States)]|[Univ. of Texas, El Paso, TX (United States)

    1997-03-01

    Kruglyak and Lander provide an important synthesis of methods for (IBD) sib-pair linkage mapping, with an emphasis on the use of complete multipoint inheritance information for each sib pair. These procedures are implemented in the computer program MAPMAKER/SIBS, which performs interval mapping for dichotomous and quantitative traits. The authors present three methods for mapping quantitative trait loci (QTLs): a variant of the commonly used Haseman-Elston regression approach, a maximum-likelihood procedure involving variance components, and a rank-based nonparametric procedure. These approaches and related work use the magnitude of the difference in the sibling phenotype values for each sib pair as the observation for analysis. Linkage is detected if siblings sharing more alleles IBD have similar phenotypes (i.e., a small difference in the phenotype values), while siblings sharing fewer alleles IBD have less similar phenotypes. Such techniques have been used to detect linkage for a number of quantitative traits. However, the exclusive reliance on the phenotypic differences may be due in large part to historical inertia. A likelihood argument is presented here to show that, under certain classical assumptions, the phenotypic differences do not contain the full likelihood information for QTL mapping. Furthermore, considerable gains in power to detect linkage can be achieved with an expanded likelihood model. The development here is related to previous work, which incorporates the full set of phenotypic data using likelihood and robust quasi-likelihood methods. The purpose of this letter is not to endorse a particular approach but to spur research in alternative and perhaps more powerful linkage tests. 17 refs.

  6. Research information needs on terrestrial vertebrate species of the interior Columbia basin and northern portions of the Klamath and Great Basins: a research, development, and application database.

    Science.gov (United States)

    Bruce G. Marcot

    1997-01-01

    Research information needs on selected invertebrates and all vertebrates of the interior Columbia River basin and adjacent areas in the United States were collected into a research, development, and application database as part of the Interior Columbia Basin Ecosystem Management Project. The database includes 482 potential research study topics on 232 individual...

  7. Analysing inter-relationships among water, governance, human development variables in developing countries: WatSan4Dev database coherency analysis

    Directory of Open Access Journals (Sweden)

    C. Dondeynaz

    2012-01-01

    Full Text Available The "Integrated Water Resources Management" principle was formally laid down at the International Conference on Water and Sustainable development in Dublin 1992. One of the main results of this conference is that improving Water and Sanitation Services (WSS, being a complex and interdisciplinary issue, passes through collaboration and coordination of different sectors (environment, health, economic activities, governance, and international cooperation. These sectors influence or are influenced by the access to WSS. The understanding of these interrelations appears as crucial for decision makers in the water sector. In this framework, the Joint Research Centre (JRC of the European Commission (EC has developed a new database (WatSan4Dev database containing 45 indicators (called variables in this paper from environmental, socio-economic, governance and financial aid flows data in developing countries.

    This paper describes the development of the WatSan4Dev dataset, the statistical processes needed to improve the data quality; and, finally, the analysis to verify the database coherence is presented.

    At the light of the first analysis, WatSan4Dev Dataset shows the coherency among the different variables that are confirmed by the direct field experience and/or the scientific literature in the domain. Preliminary analysis of the relationships indicates that the informal urbanisation development is an important factor influencing negatively the percentage of the population having access to WSS. Health, and in particular children health, benefits from the improvement of WSS. Efficient environmental governance is also an important factor for providing improved water supply services.

    The database would be at the base of posterior analyses to better understand the interrelationships between the different indicators associated in the water sector in developing countries. A data model using the different indicators will be realised

  8. Analysing inter-relationships among water, governance, human development variables in developing countries: WatSan4Dev database coherency analysis

    Science.gov (United States)

    Dondeynaz, C.; Carmona Moreno, C.; Céspedes Lorente, J. J.

    2012-01-01

    The "Integrated Water Resources Management" principle was formally laid down at the International Conference on Water and Sustainable development in Dublin 1992. One of the main results of this conference is that improving Water and Sanitation Services (WSS), being a complex and interdisciplinary issue, passes through collaboration and coordination of different sectors (environment, health, economic activities, governance, and international cooperation). These sectors influence or are influenced by the access to WSS. The understanding of these interrelations appears as crucial for decision makers in the water sector. In this framework, the Joint Research Centre (JRC) of the European Commission (EC) has developed a new database (WatSan4Dev database) containing 45 indicators (called variables in this paper) from environmental, socio-economic, governance and financial aid flows data in developing countries. This paper describes the development of the WatSan4Dev dataset, the statistical processes needed to improve the data quality; and, finally, the analysis to verify the database coherence is presented. At the light of the first analysis, WatSan4Dev Dataset shows the coherency among the different variables that are confirmed by the direct field experience and/or the scientific literature in the domain. Preliminary analysis of the relationships indicates that the informal urbanisation development is an important factor influencing negatively the percentage of the population having access to WSS. Health, and in particular children health, benefits from the improvement of WSS. Efficient environmental governance is also an important factor for providing improved water supply services. The database would be at the base of posterior analyses to better understand the interrelationships between the different indicators associated in the water sector in developing countries. A data model using the different indicators will be realised on the next phase of this research work.

  9. Integrated Metabolo-Transcriptomics Reveals Fusarium Head Blight Candidate Resistance Genes in Wheat QTL-Fhb2.

    Directory of Open Access Journals (Sweden)

    Dhananjay Dhokane

    Full Text Available Fusarium head blight (FHB caused by Fusarium graminearum not only causes severe losses in yield, but also reduces quality of wheat grain by accumulating mycotoxins. Breeding for host plant resistance is considered as the best strategy to manage FHB. Resistance in wheat to FHB is quantitative in nature, involving cumulative effects of many genes governing resistance. The poor understanding of genetics and lack of precise phenotyping has hindered the development of FHB resistant cultivars. Though more than 100 QTLs imparting FHB resistance have been reported, none discovered the specific genes localized within the QTL region, nor the underlying mechanisms of resistance.In our study recombinant inbred lines (RILs carrying resistant (R-RIL and susceptible (S-RIL alleles of QTL-Fhb2 were subjected to metabolome and transcriptome profiling to discover the candidate genes. Metabolome profiling detected a higher abundance of metabolites belonging to phenylpropanoid, lignin, glycerophospholipid, flavonoid, fatty acid, and terpenoid biosynthetic pathways in R-RIL than in S-RIL. Transcriptome analysis revealed up-regulation of several receptor kinases, transcription factors, signaling, mycotoxin detoxification and resistance related genes. The dissection of QTL-Fhb2 using flanking marker sequences, integrating metabolomic and transcriptomic datasets, identified 4-Coumarate: CoA ligase (4CL, callose synthase (CS, basic Helix Loop Helix (bHLH041 transcription factor, glutathione S-transferase (GST, ABC transporter-4 (ABC4 and cinnamyl alcohol dehydrogenase (CAD as putative resistance genes localized within the QTL-Fhb2 region.Some of the identified genes within the QTL region are associated with structural resistance through cell wall reinforcement, reducing the spread of pathogen through rachis within a spike and few other genes that detoxify DON, the virulence factor, thus eventually reducing disease severity. In conclusion, we report that the wheat

  10. Wide-genome QTL mapping of fruit quality traits in a tomato RIL population derived from the wild-relative species Solanum pimpinellifolium L.

    Science.gov (United States)

    Capel, Carmen; Fernández del Carmen, Asunción; Alba, Juan Manuel; Lima-Silva, Viviana; Hernández-Gras, Francesc; Salinas, María; Boronat, Albert; Angosto, Trinidad; Botella, Miguel A; Fernández-Muñoz, Rafael; Granell, Antonio; Capel, Juan; Lozano, Rafael

    2015-10-01

    QTL and candidate genes associated to fruit quality traits have been identified in a tomato genetic map derived from Solanum pimpinellifolium L., providing molecular tools for marker-assisted breeding. The study of genetic, physiological, and molecular pathways involved in fruit development and ripening has considered tomato as the model fleshy-fruited species par excellence. Fruit quality traits regarding organoleptic and nutritional properties are major goals for tomato breeding programs since they largely decide the acceptance of tomato in both fresh and processing markets. Here we report the genetic mapping of single-locus and epistatic quantitative trait loci (QTL) associated to the fruit size and content of sugars, acids, vitamins, and carotenoids from the characterization of a RIL population derived from the wild-relative Solanum pimpinellifolium TO-937. A genetic map composed of 353 molecular markers including 13 genes regulating fruit and developmental traits was generated, which spanned 1007 cM with an average distance between markers of 2.8 cM. Genetic analyses indicated that fruit quality traits analyzed in this work exhibited transgressive segregation and that additive and epistatic effects are the major genetic basis of fruit quality traits. Moreover, most mapped QTL showed environment interaction effects. FrW7.1 fruit size QTL co-localized with QTL involved in soluble solid, vitamin C, and glucose contents, dry weight/fresh weight, and most importantly with the Sucrose Phosphate Synthase gene, suggesting that polymorphisms in this gene could influence genetic variation in several fruit quality traits. In addition, 1-deoxy-D-xylulose 5-phosphate synthase and Tocopherol cyclase genes were identified as candidate genes underlying QTL variation in beta-carotene and vitamin C. Together, our results provide useful genetic and molecular information regarding fruit quality and new chances for tomato breeding by implementing marker-assisted selection.

  11. Identification of candidate genes associated with cell wall digestibility and eQTL (expression quantitative trait loci) analysis in a Flint x Flint maize recombinant inbred line population.

    Science.gov (United States)

    Shi, Chun; Uzarowska, Anna; Ouzunova, Milena; Landbeck, Matthias; Wenzel, Gerhard; Lübberstedt, Thomas

    2007-01-18

    generally found to be oligogenic rather than monogenic inherited due to only 26% ESTs detected a single eQTL in the present study. One eQTL hotspot was co-localized with cell wall digestibility related QTL cluster on bins 3.05, implying that in this case the gene(s) underlying QTL and eQTL are identical. As the field of genetical genomics develops, it is expected to significantly improve our knowledge about complex traits, such as cell wall degradability. Comprehensive knowledge of the lignin pathway and cell wall biogenesis will allow plant breeders to choose the best genomic targets controlling these characters, for improving forage digestibility through genetic engineering or marker-assisted selection.

  12. A New Diagnostic Resource for Ceratitis capitata Strain Identification Based on QTL Mapping.

    Science.gov (United States)

    Sim, Sheina B; Ruiz-Arce, Raul; Barr, Norman B; Geib, Scott M

    2017-09-09

    The Mediterranean fruit fly Ceratitis capitata (Wiedemann) is a destructive agricultural pest and the subject of exclusion efforts in many countries. Suppression and eradication of invasive populations to prevent establishment is facilitated by the release of sterile males using the sterile insect technique (SIT). In active SIT release areas, it is critical to accurately discriminate between released sterile males and wild-caught individuals to be able to detect extremely rare invasive individuals in areas inundated with millions of sterile male flies. Current methods for discrimination exist, but are not always definitive, and a more reliable method is necessary. To address this, we took a novel approach and developed a genotyping assay that is linked to traits that facilitate male-only releases and are maintained in the SIT colonies, white pupae (wp) and temperature sensitive lethal (tsl). The development of this assay was achieved through linkage mapping and QTL mapping of wp in a mapping population derived from SIT colony flies and wild-type colony flies. This new method to discriminate released SIT flies from wild individuals was demonstrated across SIT colonies and wild individuals from across the geographic range of this species. In addition, linkage and QTL mapping of wp in C. capitata has larger impacts as it can serve as a foundational tool to identify the genetic basis of traits that facilitate the separation of male from female flies which can be used to develop SIT programs in related species. Copyright © 2017, G3: Genes, Genomes, Genetics.

  13. Identification of unconditional and conditional QTL for oil, protein and starch content in maize

    Institute of Scientific and Technical Information of China (English)

    Yuqiu; Guo; Xiaohong; Yang; Subhash; Chander; Jianbing; Yan; Jun; Zhang; Tongming; Song; Jiansheng; Li

    2013-01-01

    Oil, protein and starch are key chemical components of maize kernels. A population of 245 recombinant inbred lines(RILs) derived from a cross between a high-oil inbred line, By804, and a regular inbred line, B73, was used to dissect the genetic interrelationships among oil, starch and protein content at the individual QTL level by unconditional and conditional QTL mapping. Combined phenotypic data over two years with a genetic linkage map constructed using 236 markers, nine, five and eight unconditional QTL were detected for oil, protein and starch content, respectively. Some QTL for oil, protein and starch content were clustered in the same genomic regions and the direction of their effects was consistent with the sign of their correlation. In conditional QTL mapping, 37(29/8) unconditional QTL were not detected or showed reduced effects, four QTL demonstrated similar effects under unconditional and conditional QTL mapping, and 17 additional QTL were identified by conditional QTL mapping. These results imply that there is a strong genetic relationship among oil, protein and starch content in maize kernels. The information generated in the present investigation could be helpful in marker-assisted breeding for maize varieties with desirable kernel quality traits.

  14. QTL mapping under truncation selection in homozygous lines derived from biparental crosses.

    Science.gov (United States)

    Melchinger, Albrecht E; Orsini, Elena; Schön, Chris C

    2012-02-01

    In plant breeding, a large number of progenies that will be discarded later in the breeding process must be phenotyped and marker genotyped for conducting QTL analysis. In many cases, phenotypic preselection of lines could be useful. However, in QTL analyses even moderate preselection can have a significant effect on the power of QTL detection and estimation of effects of the target traits. In this study, we provide exact formulas for quantifying the change of allele frequencies within marker classes, expectations of marker contrasts and the variance of the marker contrasts under truncation selection, for the general case of two QTL affecting the target trait and a correlated trait. We focused on homozygous lines derived at random from biparental crosses. The effects of linkage between the marker and the QTL under selection as well as the effect of selection on a correlated trait can be quantified with the given formulas. Theoretical results clearly show that depending on the magnitude of QTL effects, high selection intensities can lead to a dramatic reduction in power of QTL detection and that approximations based on the infinitesimal model deviate substantially from exact solutions. The presented formulas are valuable for choosing appropriate selection intensity when performing QTL mapping experiments on the data on phenotypically preselected traits and enable the calculation and bias correction of the effects of QTL under selection. Application of our theory to experimental data revealed that selection-induced bias of QTL effects can be successfully corrected.

  15. Mendelizing all components of a pyramid of three yield QTL in tomato

    Directory of Open Access Journals (Sweden)

    Amit eGur

    2015-12-01

    Full Text Available Molecular markers allowed breeders to Mendelize quantitative trait loci (QTL providing another demonstration that quantitative traits are governed by the same principles as single qualitative genes. This research extends the QTL analysis to two and three QTL and tests our ability to Mendelize an oligogenic trait. In tomato, agricultural yield is determined by the weight of the fruits harvested per unit area and the total soluble solids (% Brix–sugars and acids. The current study explores the segregation of multiple independent yield-related QTL that were identified and mapped using introgression lines (IL of Solanum pennellii in cultivated processing tomato (Solanum lycopersicum. We screened 45 different double and triple IL-QTL combinations for agricultural yield, to identify QTL pyramids that behaved in an additive manner and were suitable substrate for Mendelizing an oligogenic trait. A pyramid of three independent QTL that significantly improved Brix*Yield (BXY - the soluble solids output per unit area compared to M82 was selected. In the progenies of the tri-hybrid we bred using markers a nearly isogenic 'immortalized F2'. While the common mode of QTL-QTL interactions across the 45 IL-QTLs combinations was less than additive, the three QTLs in the selected triple-stack performed in an additive manner which made it an exceptional material for breeding. This study demonstrates that using the phenotypic effect of all 27 possible QTL-alleles combinations it is possible to make reliable predictions about the genotypes that will maximize the yield.

  16. 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

  17. Development of the Social Inventory Database in Thailand Using Input–Output Analysis

    Directory of Open Access Journals (Sweden)

    Seksan Papong

    2015-06-01

    Full Text Available The social life cycle assessment (S-LCA is a technique for assessing social impact and potential impact that aims to evaluate the social and socio-economic aspects of products and their potential for both positive and negative impacts along their life cycle. The lack of a quantitative inventory data for social issues is a weakness of the S-LCA methodology to calculate social impacts. This study aims to establish a social inventory database in Thailand using input–output (IO modeling. The 2005 economic IO table of Thailand is used in this study. The six different social issues are calculated for both direct and indirect social intensity. The social issues include employment, number of female employees, working hours, wages and salaries, and non-fatal and fatal occupational cases. The results indicate that the primary sector has the highest social intensity in terms of employment, female employment, and working hour intensity. Meanwhile, the secondary sector was higher in non-fatal occupational cases intensity than other sectors. For wages intensity, the results show that the government sector was higher than other sectors, it being labor intensive and of low economic value. In addition, the fatal occupational cases shows the highest intensity in the non-metallic mining, fertilizer and pesticides, and construction sectors. In terms of total social impacts or social footprints, the wholesale and retail trade sector had the highest impact for almost all social issues due to the higher final demand in this sector.

  18. Evaluation of nuclear data for R and D projects; development of database for medical nuclear data

    Energy Technology Data Exchange (ETDEWEB)

    Seo, Tae Suk [Catholic University, Seoul (Korea); Shin, D. O. [Kyung Hee University, Seoul (Korea); Joh, C. W.; Chang, J. S. [Ajou University, Suwon (Korea); Choi, Y. [Sungkyunkwan University, Seoul (Korea); Kim, S. H. [Hanyang University, Seoul (Korea); Park, S. Y. [National Cancer Center, Seoul (Korea); Shin, D. H.; Lee, S [Kyonggi University, Seoul (Korea)

    2002-04-01

    Medical nuclear data used in the country is not provided by academic associations and organizations concerned and even by government organizations concerned. This is aimed to investigate the diagnostic and therapeutic equipments in the clinical use and the domestic present status of nuclear data and physical properties of sealed or unsealed radioactive isotopes and to establish the nuclear database. About 120 domestic centers take nuclear medicine tests and 52 medical centers do radiotherapy. The 30-odd different kinds of radionuclides are usually used in nuclear medicine in the country. The 30-odd kinds of unsealed sources are used for diagnosis and therapy and 10-odd kinds of sealed sources for brachytherapy in the country. The special radiotherapy includes Gamma-knife, linac-based stereotactic radiosurgery, conformal radiotherapy and Intensity modulated radiotherapy. The nuclear data base has been completed on the basis of these data collected and the web site made is available with ease to anyone who want to get nuclear data. 39 refs., 20 figs., 8 tabs. (Author)

  19. Diseno y desarrollo de una base de datos bibliograficos (Design and Development of a Bibliographic Database).

    Science.gov (United States)

    Mattenella, L. E.; Velazco, J. W.

    1992-01-01

    This article briefly describes the development of bibliographic retrieval systems in the Instituto de Beneficio di Minerales (IN BE MI) in Salta, Argentina, using the Mini-micro CDS/ISIS software developed by Unesco. (LRW)

  20. Diseno y desarrollo de una base de datos bibliograficos (Design and Development of a Bibliographic Database).

    Science.gov (United States)

    Mattenella, L. E.; Velazco, J. W.

    1992-01-01

    This article briefly describes the development of bibliographic retrieval systems in the Instituto de Beneficio di Minerales (IN BE MI) in Salta, Argentina, using the Mini-micro CDS/ISIS software developed by Unesco. (LRW)

  1. BioAssay Research Database (BARD): chemical biology and probe-development enabled by structured metadata and result types.

    Science.gov (United States)

    Howe, E A; de Souza, A; Lahr, D L; Chatwin, S; Montgomery, P; Alexander, B R; Nguyen, D-T; Cruz, Y; Stonich, D A; Walzer, G; Rose, J T; Picard, S C; Liu, Z; Rose, J N; Xiang, X; Asiedu, J; Durkin, D; Levine, J; Yang, J J; Schürer, S C; Braisted, J C; Southall, N; Southern, M R; Chung, T D Y; Brudz, S; Tanega, C; Schreiber, S L; Bittker, J A; Guha, R; Clemons, P A

    2015-01-01

    BARD, the BioAssay Research Database (https://bard.nih.gov/) is a public database and suite of tools developed to provide access to bioassay data produced by the NIH Molecular Libraries Program (MLP). Data from 631 MLP projects were migrated to a new structured vocabulary designed to capture bioassay data in a formalized manner, with particular emphasis placed on the description of assay protocols. New data can be submitted to BARD with a user-friendly set of tools that assist in the creation of appropriately formatted datasets and assay definitions. Data published through the BARD application program interface (API) can be accessed by researchers using web-based query tools or a desktop client. Third-party developers wishing to create new tools can use the API to produce stand-alone tools or new plug-ins that can be integrated into BARD. The entire BARD suite of tools therefore supports three classes of researcher: those who wish to publish data, those who wish to mine data for testable hypotheses, and those in the developer community who wish to build tools that leverage this carefully curated chemical biology resource.

  2. Evaluation and Bulked Segregant Analysis of Major Yield QTL qtl12.1 Introgressed into Indigenous Elite Line for Low Water Availability under Water Stress

    Institute of Scientific and Technical Information of China (English)

    N.Manikanda BOOPATHI; Gat SWAPNASHRI; P.KAVITHA; S.SATHISH; R.NITHYA; Wickneswari RATNAM; Arvind KUMAR

    2013-01-01

    Near isogenic lines carrying large-effect QTL (qtl12.1),which has a consistent influence on grain yield under upland drought stress conditions in a wide range of environments,were evaluated under water stress in the fields.The line which gave higher yield under drought was crossed with a local elite line,PMK3,and forwarded to F2:3 generation.Significant variation was found among the F2:3 lines for agronomic traits under water stress in the fields.Low to high broad sense heritability (H) for investigated traits was also found.Water stress indicators such as leaf rolling and leaf drying were negatively correlated with plant height,biomass and grain yield under stress.Bulked segregant analysis (BSA) was performed with the markers in the vicinity of qtl12.1,and RM27933 was found to be segregated perfectly well in individual components of drought resistant and drought susceptible bulks which were bulked based on yield under water stress among F2:3 lines.Hence,this simple and breeder friendly marker,RM27933,may be useful as a potentially valuable candidate marker for the transfer of the QTL qtl12.1 in the regional breeding program.Bioinformatic analysis of the DNA sequence of the qtl12.1 region was also done to identify and analyze positional candidate genes associated with this QTL and to ascertain the putative molecular basis of qtl12.1.

  3. Keyword Search in Databases

    CERN Document Server

    Yu, Jeffrey Xu; Chang, Lijun

    2009-01-01

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

  4. AB-QTL analysis reveals new alleles associated to proline accumulation and leaf wilting under drought stress conditions in barley (Hordeum vulgare L.

    Directory of Open Access Journals (Sweden)

    Sayed Mohammed A

    2012-07-01

    Full Text Available Abstract Background Land plants have evolved several measures to maintain their life against abiotic stresses. The accumulation of proline is the most generalized response of plants under drought, heat or salt stress conditions. It is known as an osmoprotectant which also acts as an instant source of energy during drought recovery process. But, both its role and genetic inheritance are poorly understood in agriculture crops. In the present work, advanced backcross quantitative trait locus (AB-QTL analysis was performed to elucidate genetic mechanisms controlling proline accumulation and leaf wilting in barley under drought stress conditions. Results The analysis revealed eight QTL associated to proline content (PC and leaf wilting (WS. QTL for PC were localized on chromosome 3H, 4H, 5H and 6H. The strongest QTL effect QPC.S42.5H was detected on chromosome 5H where drought inducible exotic allele was associated to increase PC by 54%. QTL effects QPC.S42.3H, QPC.S42.4H and QPC.S42.6H were responsible to heighten PC due to the preeminence of elite alleles over the exotic alleles which ranged from 26% to 43%. For WS, QTL have been localized on chromosome 1H, 2H, 3H and 4H. Among these, QWS.S42.1H and QWS.S42.4H were associated to decrease in WS due to the introgression of exotic alleles. In addition, two digenic epistatic interaction effects were detected for WS where the additive effect of exotic alleles imparted a favorable increase in the trait value. Conclusions The present data represents a first report on whole-genome mapping of proline accumulation and leaf wilting in barley. The detected QTL are linked to new alleles from both cultivated and wild accessions which bring out an initial insight on the genetic inheritance of PC and WS. These QTL alleles are fixed in the isogenic background of Scarlett, which will allow for positional cloning of underlying genes and to develop drought resilient barley cultivars.

  5. AB-QTL analysis reveals new alleles associated to proline accumulation and leaf wilting under drought stress conditions in barley (Hordeum vulgare L.).

    Science.gov (United States)

    Sayed, Mohammed A; Schumann, Henrik; Pillen, Klaus; Naz, Ali A; Léon, Jens

    2012-07-20

    Land plants have evolved several measures to maintain their life against abiotic stresses. The accumulation of proline is the most generalized response of plants under drought, heat or salt stress conditions. It is known as an osmoprotectant which also acts as an instant source of energy during drought recovery process. But, both its role and genetic inheritance are poorly understood in agriculture crops. In the present work, advanced backcross quantitative trait locus (AB-QTL) analysis was performed to elucidate genetic mechanisms controlling proline accumulation and leaf wilting in barley under drought stress conditions. The analysis revealed eight QTL associated to proline content (PC) and leaf wilting (WS). QTL for PC were localized on chromosome 3H, 4H, 5H and 6H. The strongest QTL effect QPC.S42.5H was detected on chromosome 5H where drought inducible exotic allele was associated to increase PC by 54%. QTL effects QPC.S42.3H, QPC.S42.4H and QPC.S42.6H were responsible to heighten PC due to the preeminence of elite alleles over the exotic alleles which ranged from 26% to 43%. For WS, QTL have been localized on chromosome 1H, 2H, 3H and 4H. Among these, QWS.S42.1H and QWS.S42.4H were associated to decrease in WS due to the introgression of exotic alleles. In addition, two digenic epistatic interaction effects were detected for WS where the additive effect of exotic alleles imparted a favorable increase in the trait value. The present data represents a first report on whole-genome mapping of proline accumulation and leaf wilting in barley. The detected QTL are linked to new alleles from both cultivated and wild accessions which bring out an initial insight on the genetic inheritance of PC and WS. These QTL alleles are fixed in the isogenic background of Scarlett, which will allow for positional cloning of underlying genes and to develop drought resilient barley cultivars.

  6. Variation and inheritance of iron reductase activity in the roots of common bean (Phaseolus vulgaris L. and association with seed iron accumulation QTL

    Directory of Open Access Journals (Sweden)

    Fernandez Andrea C

    2010-10-01

    Full Text Available Abstract Background Iron deficiency anemia is a global problem which often affects women and children of developing countries. Strategy I plants, such as common bean (Phaseolus vulgaris L. take up iron through a process that involves an iron reduction mechanism in their roots; this reduction is required to convert ferric iron to ferrous iron. Root absorbed iron is critical for the iron nutrition of the plant, and for the delivery of iron to the shoot and ultimately the seeds. The objectives of this study were to determine the variability and inheritance for iron reductase activity in a range of genotypes and in a low × high seed iron cross (DOR364 × G19833, to identify quantitative trait loci (QTL for this trait, and to assess possible associations with seed iron levels. Results The experiments were carried out with hydroponically grown plants provided different amounts of iron varying between 0 and 20 μM Fe(III-EDDHA. The parents, DOR364 and G19833, plus 13 other cultivated or wild beans, were found to differ in iron reductase activity. Based on these initial experiments, two growth conditions (iron limited and iron sufficient were selected as treatments for evaluating the DOR364 × G19833 recombinant inbred lines. A single major QTL was found for iron reductase activity under iron-limited conditions (1 μM Fe on linkage group b02 and another major QTL was found under iron sufficient conditions (15 μM Fe on linkage group b11. Associations between the b11 QTL were found with several QTL for seed iron. Conclusions Genes conditioning iron reductase activity in iron sufficient bean plants appear to be associated with genes contributing to seed iron accumulation. Markers for bean iron reductase (FRO homologues were found with in silico mapping based on common bean synteny with soybean and Medicago truncatula on b06 and b07; however, neither locus aligned with the QTL for iron reductase activity. In summary, the QTL for iron reductase activity

  7. Mapping of QTL on chromosomes 1, 2, 3, 12, 14, 15 and X in pigs: characteristics carcass and quality of meat

    NARCIS (Netherlands)

    Paixao, D.M.; Carneiro, P.L.S.; Paiva, S.R.; Sousa, K.R.S.; Verardo, L.L.; Braccini Neto, J.; Pinto, A.P.G.; Marubayashi Hidalgo, A.; Nascimento, C.; Périssé, I.V.; Lopes, P.S.; Guimaraes, S.E.F.

    2012-01-01

    The accomplishment of the present study had as objective to map Quantitative Trait Loci (QTL) associated to carcass and quality traits in a F2 pig population developed by mating two Brazilian Piau breed sires with 18 dams from a commercial line (Landrace × Large White × Pietrain). The linkage map

  8. Common bacterial blight resistance QTL BC420 and SU91 effect on seed yield, seed weight and canning quality in Dry Bean

    Science.gov (United States)

    Genetic resistance is useful for integrated control of common bacterial blight (CBB) disease which limits dry bean (Phaseolus vulgaris L.) production worldwide. Resistance QTL from tepary bean (Phaseolus acutifolius A. Gray) and other sources have been used to develop common bean lines with high lev...

  9. Mapping of QTL on chromosomes 1, 2, 3, 12, 14, 15 and X in pigs: characteristics carcass and quality of meat

    NARCIS (Netherlands)

    Paixao, D.M.; Carneiro, P.L.S.; Paiva, S.R.; Sousa, K.R.S.; Verardo, L.L.; Braccini Neto, J.; Pinto, A.P.G.; Marubayashi Hidalgo, A.; Nascimento, C.; Périssé, I.V.; Lopes, P.S.; Guimaraes, S.E.F.

    2012-01-01

    The accomplishment of the present study had as objective to map Quantitative Trait Loci (QTL) associated to carcass and quality traits in a F2 pig population developed by mating two Brazilian Piau breed sires with 18 dams from a commercial line (Landrace × Large White × Pietrain). The linkage map fo

  10. Development of national database on long-term deforestation (1930-2014) in Bangladesh

    Science.gov (United States)

    Reddy, C. Sudhakar; Pasha, S. Vazeed; Jha, C. S.; Diwakar, P. G.; Dadhwal, V. K.

    2016-04-01

    The aim of the present study is to prepare a nation-wide spatial database on forest cover to assess and monitor the land use changes associated with deforestation in Bangladesh. The multi-source data were interpreted to get the forest cover map of 1930, 1975, 1985, 1995, 2006 and 2014. The spatial information generated on total area under forest cover, rate of deforestation and afforestation, changes across forest types, forest canopy density, replacement land use in deforested area and deforestation hotspots. This spatial analysis has indicated that forest cover is undergoing significant negative change in area and quality. We report that forests in Bangladesh covered an area of 23,140 km2 in 1930 which has decreased to 14,086 km2 in 2014, a net loss of 9054 km2 (39.1%) in eight decades. Analysis of annual rate of gross deforestation for the recent period indicates 0.77% during 2006-2014. During the past eight decades, semi-evergreen forests show loss of 56.4% of forest cover followed by moist deciduous forests (51.5%), dry deciduous forests (43.1%) and mangroves (6.5%). The loss of 23.5% of dense forest cover was found from 1975 to 2014. Dense semi-evergreen forests shows more negative change (36.9%) followed by dense moist deciduous forest (32.7%) from 1975 to 2014. Annual rate of deforestation is higher in dense forests compared to open forests from 2006 to 2014 and indicates increased threat due to anthropogenic pressures. The spatial analysis of forest cover change in mangroves has shown a lower rate of deforestation. Most of the forest conversions have led to the degradation of forests to scrub and transition to agriculture and plantation. The study has identified the 'deforestation hotspots' can help in strategic planning for conservation and management of forest resources.

  11. Cloud Databases: A Paradigm Shift in Databases

    Directory of Open Access Journals (Sweden)

    Indu Arora

    2012-07-01

    Full Text Available Relational databases ruled the Information Technology (IT industry for almost 40 years. But last few years have seen sea changes in the way IT is being used and viewed. Stand alone applications have been replaced with web-based applications, dedicated servers with multiple distributed servers and dedicated storage with network storage. Cloud computing has become a reality due to its lesser cost, scalability and pay-as-you-go model. It is one of the biggest changes in IT after the rise of World Wide Web. Cloud databases such as Big Table, Sherpa and SimpleDB are becoming popular. They address the limitations of existing relational databases related to scalability, ease of use and dynamic provisioning. Cloud databases are mainly used for data-intensive applications such as data warehousing, data mining and business intelligence. These applications are read-intensive, scalable and elastic in nature. Transactional data management applications such as banking, airline reservation, online e-commerce and supply chain management applications are write-intensive. Databases supporting such applications require ACID (Atomicity, Consistency, Isolation and Durability properties, but these databases are difficult to deploy in the cloud. The goal of this paper is to review the state of the art in the cloud databases and various architectures. It further assesses the challenges to develop cloud databases that meet the user requirements and discusses popularly used Cloud databases.

  12. Teamwork: improved eQTL mapping using combinations of machine learning methods.

    Directory of Open Access Journals (Sweden)

    Marit Ackermann

    Full Text Available Expression quantitative trait loci (eQTL mapping is a widely used technique to uncover regulatory relationships between genes. A range of methodologies have been developed to map links between expression traits and genotypes. The DREAM (Dialogue on Reverse Engineering Assessments and Methods initiative is a community project to objectively assess the relative performance of different computational approaches for solving specific systems biology problems. The goal of one of the DREAM5 challenges was to reverse-engineer genetic interaction networks from synthetic genetic variation and gene expression data, which simulates the problem of eQTL mapping. In this framework, we proposed an approach whose originality resides in the use of a combination of existing machine learning algorithms (committee. Although it was not the best performer, this method was by far the most precise on average. After the competition, we continued in this direction by evaluating other committees using the DREAM5 data and developed a method that relies on Random Forests and LASSO. It achieved a much higher average precision than the DREAM best performer at the cost of slightly lower average sensitivity.

  13. 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.

  14. Onzekere databases

    NARCIS (Netherlands)

    van Keulen, Maurice

    Een recente ontwikkeling in het databaseonderzoek betret zogenaamde 'onzekere databases'. Dit artikel beschrijft wat onzekere databases zijn, hoe ze gebruikt kunnen worden en welke toepassingen met name voordeel zouden kunnen hebben van deze technologie.

  15. 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...

  16. [Research and development of medical case database: a novel medical case information system integrating with biospecimen management].

    Science.gov (United States)

    Pan, Shiyang; Mu, Yuan; Wang, Hong; Wang, Tong; Huang, Peijun; Ma, Jianfeng; Jiang, Li; Zhang, Jie; Gu, Bing; Yi, Lujiang

    2010-04-01

    To meet the needs of management of medical case information and biospecimen simultaneously, we developed a novel medical case information system integrating with biospecimen management. The database established by MS SQL Server 2000 covered, basic information, clinical diagnosis, imaging diagnosis, pathological diagnosis and clinical treatment of patient; physicochemical property, inventory management and laboratory analysis of biospecimen; users log and data maintenance. The client application developed by Visual C++ 6.0 was used to implement medical case and biospecimen management, which was based on Client/Server model. This system can perform input, browse, inquest, summary of case and related biospecimen information, and can automatically synthesize case-records based on the database. Management of not only a long-term follow-up on individual, but also of grouped cases organized according to the aim of research can be achieved by the system. This system can improve the efficiency and quality of clinical researches while biospecimens are used coordinately. It realizes synthesized and dynamic management of medical case and biospecimen, which may be considered as a new management platform.

  17. Development of a panel of unigene-derived polymorphic EST-SSR markers in lentil using public database information

    Institute of Scientific and Technical Information of China (English)

    Debjyoti Sen Gupta; Peng Cheng; Gaurav Sablok; Dil Thavarajah; Pushparajah Thavarajah; Clarice J Coyne; Shiv Kumar; Michael Baum; Rebecca J McGee

    2016-01-01

    Lentil (Lens culinaris Medik.), a diploid (2n=14) with a genome size greater than 4000 Mbp, is an important cool season food legume grown worldwide. The availability of genomic resources is limited in this crop species. The objective of this study was to develop polymorphic markers in lentil using publicly available curated expressed sequence tag information (ESTs). In this study, 9513 ESTs were downloaded from the National Center for Biotechnology Information (NCBI) database to develop unigene-based simple sequence repeat (SSR) markers. The ESTs were assembled into 4053 unigenes and then analyzed to identify 374 SSRs using the MISA microsatellite identification tool. Among the 374 SSRs, 26 compound SSRs were observed. Primer pairs for these SSRs were designed using Primer3 version 1.14. To classify the functional annotation of ESTs and EST–SSRs, BLASTx searches (using E-value 1 × 10−5) against the public UniProt (http://www.uniprot.org/) and NCBI (http://www.ncbi.nlh.nih.gov/) data-bases were performed. Further functional annotation was performed using PLAZA (version 3.0) comparative genomics and GO annotation was summarized using the Plant GO slim category. Among the synthesized 312 primers, 219 successfully amplified Lens DNA. A diverse panel of 24 Lens genotypes was used to identify polymorphic markers. A polymorphic set of 57 markers successfully discriminated the test genotypes. This set of polymorphic markers with functional annotation data could be used as molecular tools in lentil breeding.

  18. 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…

  19. 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…

  20. Innovative Approach for Development of Drinking Water Research Data in the EPA Treatability Database

    Science.gov (United States)

    In recent years, funding for development of the TDB has been limited due to Federal budget constraints. As a result, EPA adopted an innovative approach to continue the development of new contaminants and maintenance of treatability information on over 60 existing drinking water ...