WorldWideScience

Sample records for browser database update

  1. The UCSC Genome Browser database: 2016 update.

    Science.gov (United States)

    Speir, Matthew L; Zweig, Ann S; Rosenbloom, Kate R; Raney, Brian J; Paten, Benedict; Nejad, Parisa; Lee, Brian T; Learned, Katrina; Karolchik, Donna; Hinrichs, Angie S; Heitner, Steve; Harte, Rachel A; Haeussler, Maximilian; Guruvadoo, Luvina; Fujita, Pauline A; Eisenhart, Christopher; Diekhans, Mark; Clawson, Hiram; Casper, Jonathan; Barber, Galt P; Haussler, David; Kuhn, Robert M; Kent, W James

    2016-01-01

    For the past 15 years, the UCSC Genome Browser (http://genome.ucsc.edu/) has served the international research community by offering an integrated platform for viewing and analyzing information from a large database of genome assemblies and their associated annotations. The UCSC Genome Browser has been under continuous development since its inception with new data sets and software features added frequently. Some release highlights of this year include new and updated genome browsers for various assemblies, including bonobo and zebrafish; new gene annotation sets; improvements to track and assembly hub support; and a new interactive tool, the "Data Integrator", for intersecting data from multiple tracks. We have greatly expanded the data sets available on the most recent human assembly, hg38/GRCh38, to include updated gene prediction sets from GENCODE, more phenotype- and disease-associated variants from ClinVar and ClinGen, more genomic regulatory data, and a new multiple genome alignment.

  2. The UCSC Genome Browser database: 2017 update

    Science.gov (United States)

    Tyner, Cath; Barber, Galt P.; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Eisenhart, Christopher; Fischer, Clayton M.; Gibson, David; Gonzalez, Jairo Navarro; Guruvadoo, Luvina; Haeussler, Maximilian; Heitner, Steve; Hinrichs, Angie S.; Karolchik, Donna; Lee, Brian T.; Lee, Christopher M.; Nejad, Parisa; Raney, Brian J.; Rosenbloom, Kate R.; Speir, Matthew L.; Villarreal, Chris; Vivian, John; Zweig, Ann S.; Haussler, David; Kuhn, Robert M.; Kent, W. James

    2017-01-01

    Since its 2001 debut, the University of California, Santa Cruz (UCSC) Genome Browser (http://genome.ucsc.edu/) team has provided continuous support to the international genomics and biomedical communities through a web-based, open source platform designed for the fast, scalable display of sequence alignments and annotations landscaped against a vast collection of quality reference genome assemblies. The browser's publicly accessible databases are the backbone of a rich, integrated bioinformatics tool suite that includes a graphical interface for data queries and downloads, alignment programs, command-line utilities and more. This year's highlights include newly designed home and gateway pages; a new ‘multi-region’ track display configuration for exon-only, gene-only and custom regions visualization; new genome browsers for three species (brown kiwi, crab-eating macaque and Malayan flying lemur); eight updated genome assemblies; extended support for new data types such as CRAM, RNA-seq expression data and long-range chromatin interaction pairs; and the unveiling of a new supported mirror site in Japan. PMID:27899642

  3. The UCSC Genome Browser database: 2017 update.

    Science.gov (United States)

    Tyner, Cath; Barber, Galt P; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Eisenhart, Christopher; Fischer, Clayton M; Gibson, David; Gonzalez, Jairo Navarro; Guruvadoo, Luvina; Haeussler, Maximilian; Heitner, Steve; Hinrichs, Angie S; Karolchik, Donna; Lee, Brian T; Lee, Christopher M; Nejad, Parisa; Raney, Brian J; Rosenbloom, Kate R; Speir, Matthew L; Villarreal, Chris; Vivian, John; Zweig, Ann S; Haussler, David; Kuhn, Robert M; Kent, W James

    2017-01-04

    Since its 2001 debut, the University of California, Santa Cruz (UCSC) Genome Browser (http://genome.ucsc.edu/) team has provided continuous support to the international genomics and biomedical communities through a web-based, open source platform designed for the fast, scalable display of sequence alignments and annotations landscaped against a vast collection of quality reference genome assemblies. The browser's publicly accessible databases are the backbone of a rich, integrated bioinformatics tool suite that includes a graphical interface for data queries and downloads, alignment programs, command-line utilities and more. This year's highlights include newly designed home and gateway pages; a new 'multi-region' track display configuration for exon-only, gene-only and custom regions visualization; new genome browsers for three species (brown kiwi, crab-eating macaque and Malayan flying lemur); eight updated genome assemblies; extended support for new data types such as CRAM, RNA-seq expression data and long-range chromatin interaction pairs; and the unveiling of a new supported mirror site in Japan.

  4. The UCSC genome browser database

    DEFF Research Database (Denmark)

    Kuhn, R M; Karolchik, D; Zweig, A S

    2007-01-01

    The University of California, Santa Cruz Genome Browser Database contains, as of September 2006, sequence and annotation data for the genomes of 13 vertebrate and 19 invertebrate species. The Genome Browser displays a wide variety of annotations at all scales from the single nucleotide level up t...

  5. JPL Small Body Database Browser

    Data.gov (United States)

    National Aeronautics and Space Administration — The JPL Small-Body Database Browser provides data for all known asteroids and many comets. Newly discovered objects and their orbits are added on a daily basis....

  6. The UCSC Genome Browser Database

    DEFF Research Database (Denmark)

    Karolchik, D; Kuhn, R M; Baertsch, R

    2008-01-01

    The University of California, Santa Cruz, Genome Browser Database (GBD) provides integrated sequence and annotation data for a large collection of vertebrate and model organism genomes. Seventeen new assemblies have been added to the database in the past year, for a total coverage of 19 vertebrat...

  7. The UCSC Genome Browser Database

    DEFF Research Database (Denmark)

    Hinrichs, A S; Karolchik, D; Baertsch, R

    2006-01-01

    The University of California Santa Cruz Genome Browser Database (GBD) contains sequence and annotation data for the genomes of about a dozen vertebrate species and several major model organisms. Genome annotations typically include assembly data, sequence composition, genes and gene predictions, ...

  8. The UCSC Archaeal Genome Browser: 2012 update.

    Science.gov (United States)

    Chan, Patricia P; Holmes, Andrew D; Smith, Andrew M; Tran, Danny; Lowe, Todd M

    2012-01-01

    The UCSC Archaeal Genome Browser (http://archaea.ucsc.edu) offers a graphical web-based resource for exploration and discovery within archaeal and other selected microbial genomes. By bringing together existing gene annotations, gene expression data, multiple-genome alignments, pre-computed sequence comparisons and other specialized analysis tracks, the genome browser is a powerful aggregator of varied genomic information. The genome browser environment maintains the current look-and-feel of the vertebrate UCSC Genome Browser, but also integrates archaeal and bacterial-specific tracks with a few graphic display enhancements. The browser currently contains 115 archaeal genomes, plus 31 genomes of viruses known to infect archaea. Some of the recently developed or enhanced tracks visualize data from published high-throughput RNA-sequencing studies, the NCBI Conserved Domain Database, sequences from pre-genome sequencing studies, predicted gene boundaries from three different protein gene prediction algorithms, tRNAscan-SE gene predictions with RNA secondary structures and CRISPR locus predictions. We have also developed a companion resource, the Archaeal COG Browser, to provide better search and display of arCOG gene function classifications, including their phylogenetic distribution among available archaeal genomes.

  9. The UCSC Archaeal Genome Browser: 2012 update

    OpenAIRE

    Chan, Patricia P.; Holmes, Andrew D.; Smith, Andrew M.; Tran, Danny; Lowe, Todd M.

    2011-01-01

    The UCSC Archaeal Genome Browser (http://archaea.ucsc.edu) offers a graphical web-based resource for exploration and discovery within archaeal and other selected microbial genomes. By bringing together existing gene annotations, gene expression data, multiple-genome alignments, pre-computed sequence comparisons and other specialized analysis tracks, the genome browser is a powerful aggregator of varied genomic information. The genome browser environment maintains the current look-and-feel of ...

  10. A multi-fingerprint browser for the ZINC database.

    Science.gov (United States)

    Awale, Mahendra; Reymond, Jean-Louis

    2014-07-01

    To confirm the activity of an initial small molecule 'hit compound' from an activity screening, one needs to probe the structure-activity relationships by testing close analogs. The multi-fingerprint browser presented here (http://dcb-reymond23.unibe.ch:8080/MCSS/) enables one to rapidly identify such close analogs among commercially available compounds in the ZINC database (>13 million molecules). The browser retrieves nearest neighbors of any query molecule in multi-dimensional chemical spaces defined by four different fingerprints, each of which represents relevant structural and pharmacophoric features in a different way: sFP (substructure fingerprint), ECFP4 (extended connectivity fingerprint), MQNs (molecular quantum numbers) and SMIfp (SMILES fingerprint). Distances are calculated using the city-block distance, a similarity measure that performs as well as Tanimoto similarity but is much faster to compute. The list of up to 1000 nearest neighbors of any query molecule is retrieved by the browser and can be then clustered using the K-means clustering algorithm to produce a focused list of analogs with likely similar bioactivity to be considered for experimental evaluation.

  11. Regular database update logics

    NARCIS (Netherlands)

    Spruit, Paul; Wieringa, Roel; Meyer, John-Jules

    2001-01-01

    We study regular first-order update logic (FUL), which is a variant of regular dynamic logic in which updates to function symbols as well as to predicate symbols are possible. We fi1rst study FUL without making assumptions about atomic updates. Second, we look at relational algebra update logic (RAU

  12. Choosing a genome browser for a Model Organism Database: surveying the maize community.

    Science.gov (United States)

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

    2010-01-01

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

  13. Wind turbine reliability database update.

    Energy Technology Data Exchange (ETDEWEB)

    Peters, Valerie A.; Hill, Roger Ray; Stinebaugh, Jennifer A.; Veers, Paul S.

    2009-03-01

    This report documents the status of the Sandia National Laboratories' Wind Plant Reliability Database. Included in this report are updates on the form and contents of the Database, which stems from a fivestep process of data partnerships, data definition and transfer, data formatting and normalization, analysis, and reporting. Selected observations are also reported.

  14. Update History of This Database - Yeast Interacting Proteins Database | 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 ...Yeast Interacting Proteins Database Update History of This Database Date Update contents 2010/03/29 Yeast In...t This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History

  15. Update History of This Database - Trypanosomes Database | 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 Trypanosomes Database Up...date History of This Database Date Update contents 2014/05/07 The contact informatio...p://www.tanpaku.org/tdb/ ) is opened. Joomla SEF URLs by Artio About This Database Database Description Download License Up...date History of This Database Site Policy | Contact Us Update History of This Database - Trypanosomes Database | LSDB Archive ...

  16. The Molecular Biology Database Collection: 2008 update.

    Science.gov (United States)

    Galperin, Michael Y

    2008-01-01

    The Nucleic Acids Research online Molecular Biology Database Collection is a public repository that lists more than 1000 databases described in this and previous Nucleic Acids Research annual database issues, as well as a selection of molecular biology databases described in other journals. All databases included in this Collection are freely available to the public. The 2008 update includes 1078 databases, 110 more than the previous one. The links to more than 80 databases have been updated and 25 obsolete databases have been removed from the list. The complete database list and summaries are available online at the Nucleic Acids Research web site, http://nar.oxfordjournals.org/.

  17. Update History of This Database - PLACE | 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 PLACE Up...date History of This Database Date Update contents 2014/10/20 The URLs of the database maintenance s... This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - PLACE | LSDB Archive ...

  18. Update History of This Database - KAIKOcDNA | 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 KAIKOcDNA Up...date History of This Database Date Update contents 2014/10/20 The URL of the database maintenanc...base Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - KAIKOcDNA | LSDB Archive ...

  19. Update History of This Database - Taxonomy Icon | 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 Taxonomy Icon Up...date History of This Database Date Update contents 2013/06/19 Taxonomy Icon English archive ...by Artio About This Database Database Description Download License Update History... of This Database Site Policy | Contact Us Update History of This Database - Taxonomy Icon | LSDB Archive ...

  20. Update History of This Database - Gclust Server | 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 Gclust Server Up...date History of This Database Update History of This Database Date Update contents 2010/03/2...leased. Joomla SEF URLs by Artio About This Database Database Description Download License Up...date History of This Database Site Policy | Contact Us Update History of This Database - Gclust Server | LSDB Archive ...

  1. Update History of This Database - RMG | 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 RMG Up...date History of This Database Date Update contents 2014/10/20 The URLs of the database maintenance sit...omla SEF URLs by Artio About This Database Database Description Download License Update History of This Data...base Site Policy | Contact Us Update History of This Database - RMG | LSDB Archive ...

  2. Update History of This Database - D-HaploDB | 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 D-HaploDB Up...date History of This Database Date Update contents 2011/09/22 D-HaploDB English archive site is ...his Database Database Description Download License Update History of This Databas...e Site Policy | Contact Us Update History of This Database - D-HaploDB | LSDB Archive ...

  3. Update History of This Database - KOME | 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 KOME Up...date History of This Database Date Update contents 2014/10/22 The URL of the whole data download site...s by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - KOME | LSDB Archive ...

  4. Update History of This Database - Open TG-GATEs | 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 Open TG-GATEs Up...date History of This Database Date Update contents 2012/07/04 A part of the hematology and b...s Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - Open TG-GATEs | LSDB Archive ...

  5. Update History of This Database - GETDB | 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 GETDB Up...date History of This Database Date Update contents 2014/05/09 URL of the portal site is changed. 201... ) is released. Joomla SEF URLs by Artio About This Database Database Description Download License Up...date History of This Database Site Policy | Contact Us Update History of This Database - GETDB | LSDB Archive ...

  6. Update History of This Database - ClEST | 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 ClEST Up...date History of This Database Date Update contents 2012/05/22 ClEST English archive site is opened. ...Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Da...tabase Site Policy | Contact Us Update History of This Database - ClEST | LSDB Archive ...

  7. Update History of This Database - AcEST | 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 AcEST Up...date History of This Database Date Update contents 2013/01/10 Errors found on AcEST Conting data hav...iew/acest/ ) is released. Joomla SEF URLs by Artio About This Database Database Description Download License Up...date History of This Database Site Policy | Contact Us Update History of This Database - AcEST | LSDB Archive ...

  8. Update History of This Database - PGDBj - Ortholog DB | 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 - Ortholog DB Up...date History of This Database Date Update contents 2014/05/12 PGDBj Ortholog DB Englis...a SEF URLs by Artio About This Database Database Description Download License Upd...ate History of This Database Site Policy | Contact Us Update History of This Database - PGDBj - Ortholog DB | LSDB Archive ...

  9. Update History of This Database - TMBETA-GENOME | 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 TMBETA-GENOME Up...date History of This Database Date Update contents 2015/03/09 TMBETA-GENOME English archive ...site is opened. Joomla SEF URLs by Artio About This Database Database Description Download License Update Hi...story of This Database Site Policy | Contact Us Update History of This Database - TMBETA-GENOME | LSDB Archive ...

  10. Update History of This Database - KEGG MEDICUS | 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 KEGG MEDICUS Up...date History of This Database Date Update contents 2014/05/09 KEGG MEDICUS English archive si...io About This Database Database Description Download License Update History of Th...is Database Site Policy | Contact Us Update History of This Database - KEGG MEDICUS | LSDB Archive ...

  11. Update History of This Database - Q-TARO | 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 Q-TARO Up...date History of This Database Date Update contents 2014/10/20 The URL of the portal site is changed... About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - Q-TARO | LSDB Archive ...

  12. Update History of This Database - Plabrain DB | 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 Plabrain DB Up...date History of This Database Date Update contents 2011/03/02 Plabrain DB English archive site... is opened. Joomla SEF URLs by Artio About This Database Database Description Download License Update Histor...y of This Database Site Policy | Contact Us Update History of This Database - Plabrain DB | LSDB Archive ...

  13. Update History of This Database - GenLibi | 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 GenLibi Up...date History of This Database Date Update contents 2014/03/25 GenLibi English archive site is open...base Database Description Download License Update History of This Database Site Policy | Contact Us Up

  14. Update History of This Database - DMPD | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available date History of This Database Date Update contents 2010/03/29 DMPD English archive site is opened. 2009/8 Data is up...[ Credits ] BLAST Search Image Search Home About Archive Update History Contact us DMPD Up...) is released. Joomla SEF URLs by Artio About This Database Database Description Download License Up...date History of This Database Site Policy | Contact Us Update History of This Database - DMPD | LSDB Archive ...

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

    Lifescience Database Archive (English)

    Full Text Available date History of This Database Date Update contents 2014/11/10 RPSD English archive site is opened. 2005/02/14 Last up...[ Credits ] BLAST Search Image Search Home About Archive Update History Contact us RPSD Up...Artio About This Database Database Description Download License Update History of... This Database Site Policy | Contact Us Update History of This Database - RPSD | LSDB Archive ...

  16. Update History of This Database - tRNADB-CE | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available nce site, URL of the original website and Whole data download are changed. 2012/07/23 - Data Updated The data is up...[ Credits ] BLAST Search Image Search Home About Archive Update History Contact us tRNADB-CE Up...date History of This Database Date Update contents 2014/08/25 Contact address, Database maintena... sample (ENV) from GenBank: 134 Environmental sample (ENV) from Sequence Read Archive: 87 2011/08/25 License is up... This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - tRNADB-CE | LSDB Archive ...

  17. Update History of This Database - Open TG-GATEs Pathological Image Database | 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 Open... TG-GATEs Pathological Image Database Update History of This Database Date Update contents 2012/05/24 Open... TG-GATEs Pathological Image Database English archive site is opened. 2012/03/30 Open TG-GATEs Pathologica...Contact Us Update History of This Database - Open TG-GATEs Pathological Image Database | LSDB Archive ...

  18. Update History of This Database - Gene Name Thesaurus | 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 Gene Name Thesaurus Up...date History of This Database Date Update contents 2013/01/17 Added a simple search UR...L for the ... Gene Name Thesaurus ... data. 2012/01/17 License is updated. 2010/03/29 Gene Name Thesaurus English ...t This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - Gene Name Thesaurus | LSDB Archive ...

  19. Update History of This Database - Society Catalog | 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 Society Catalog Up...date History of This Database Date Update contents 2013/05/13 The original website (http:/.../biosciencedbc.jp/adcatalog/adcatalog.cgi?lng=en) was terminated on May 13th, 2013. The original website information was up...s by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Up

  20. VISTA Enhancer Browser--A Database of Tissue-Specific HumanEnhancers

    Energy Technology Data Exchange (ETDEWEB)

    Visel, Axel; Minovitsky, Simon; Dubchak, Inna; Pennacchio, Len A.

    2006-08-01

    Despite the known existence of distant-acting cis-regulatoryelements in the human genome, only a small fraction of these elements hasbeen identified and experimentally characterized in vivo. This paucity ofenhancer collections with defined activities has thus hinderedcomputational approaches for the genome-wide prediction of enhancers andtheir functions. To fill this void, we utilize comparative genomeanalysis to identify candidate enhancer elements in the human genomecoupled with the experimental determination of their in vivo enhanceractivity in transgenic mice (1). These data are available through theVISTA Enhancer Browser (http://enhancer.lbl.gov). This growing databasecurrently contains over 250 experimentally tested DNA fragments, of whichmore than 100 have been validated as tissue-specific enhancers. For eachpositive enhancer, we provide digital images of whole-mount embryostaining at embryonic day 11.5 and an anatomical description of thereporter gene expression pattern. Users can retrieve elements near singlegenes of interest, search for enhancers that target reporter geneexpression to a particular tissue, or download entire collections ofenhancers with a defined tissue specificity or conservation depth. Theseexperimentally validated training sets are expected to provide a basisfor a wide range of downstream computational and functional studies ofenhancer function.

  1. Update History of This Database - Budding yeast cDNA sequencing project | 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 ...Budding yeast cDNA sequencing project Update History of This Database Date Update contents 2010/03/29 Buddin...tio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History

  2. Update History of This Database - DGBY | 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 DGBY Up...date History of This Database Date Update contents 2014/10/20 The URL of the portal site is changed. ...2012/05/09 Database maintenance site and URL of the original website are updated. 2012/04/17 Expression of a...ttribution in License is updated. 2012/03/08 DGBY English archive site is opened....yakudachi/yeast/index.html ) is opened. Joomla SEF URLs by Artio About This Database Database Description Download License Up

  3. Update History of This Database - Dicty_cDB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available date History of This Database Date Update contents 2015/01/09 The original website information was up...[ Credits ] BLAST Search Image Search Home About Archive Update History Contact us Dicty_cDB Up...dated. 2010/03/29 Dicty_cDB English archive site is opened. 2009/8 Data is updated. 1996/12 Dicty_cDB(h...s by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Up

  4. Update History of This Database - AT Atlas | 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 AT Atlas...formation is corrected. 2013/11/19 AT Atlas English archive site is opened. 2011/08 AT Atlas ( http://www.ta...base Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - AT Atlas | LSDB Archive ...

  5. Update History of This Database - TP Atlas | 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 TP Atlas...formation is corrected. 2013/11/19 TP Atlas English archive site is opened. 2008/4/1 TP Atlas ( http://www.t...abase Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - TP Atlas | LSDB Archive ...

  6. The Danish (Q)SAR Database Update Project

    DEFF Research Database (Denmark)

    Nikolov, Nikolai Georgiev; Dybdahl, Marianne; Abildgaard Rosenberg, Sine

    2013-01-01

    , carcinogenicity and others), each of them available for 185,000 organic substances. The database has been available online since 2005 (http://qsar.food.dtu.dk). A major update project for the Danish (Q)SAR database is under way, with a new online release planned in the beginning of 2015. The updated version...

  7. Event-based incremental updating of spatio-temporal database

    Institute of Scientific and Technical Information of China (English)

    周晓光; 陈军; 蒋捷; 朱建军; 李志林

    2004-01-01

    Based on the relationship among the geographic events, spatial changes and the database operations, a new automatic (semi-automatic) incremental updating approach of spatio-temporal database (STDB) named as event-based incremental updating (E-BIU) is proposed in this paper. At first, the relationship among the events, spatial changes and the database operations is analyzed, then a total architecture of E-BIU implementation is designed, which includes an event queue, three managers and two sets of rules, each component is presented in detail. The process of the E-BIU of master STDB is described successively. An example of building's incremental updating is given to illustrate this approach at the end. The result shows that E-BIU is an efficient automatic updating approach for master STDB.

  8. The 2014 Nucleic Acids Research Database Issue and an updated NAR online Molecular Biology Database Collection.

    Science.gov (United States)

    Fernández-Suárez, Xosé M; Rigden, Daniel J; Galperin, Michael Y

    2014-01-01

    The 2014 Nucleic Acids Research Database Issue includes descriptions of 58 new molecular biology databases and recent updates to 123 databases previously featured in NAR or other journals. For convenience, the issue is now divided into eight sections that reflect major subject categories. Among the highlights of this issue are six databases of the transcription factor binding sites in various organisms and updates on such popular databases as CAZy, Database of Genomic Variants (DGV), dbGaP, DrugBank, KEGG, miRBase, Pfam, Reactome, SEED, TCDB and UniProt. There is a strong block of structural databases, which includes, among others, the new RNA Bricks database, updates on PDBe, PDBsum, ArchDB, Gene3D, ModBase, Nucleic Acid Database and the recently revived iPfam database. An update on the NCBI's MMDB describes VAST+, an improved tool for protein structure comparison. Two articles highlight the development of the Structural Classification of Proteins (SCOP) database: one describes SCOPe, which automates assignment of new structures to the existing SCOP hierarchy; the other one describes the first version of SCOP2, with its more flexible approach to classifying protein structures. This issue also includes a collection of articles on bacterial taxonomy and metagenomics, which includes updates on the List of Prokaryotic Names with Standing in Nomenclature (LPSN), Ribosomal Database Project (RDP), the Silva/LTP project and several new metagenomics resources. The NAR online Molecular Biology Database Collection, http://www.oxfordjournals.org/nar/database/c/, has been expanded to 1552 databases. The entire Database Issue is freely available online on the Nucleic Acids Research website (http://nar.oxfordjournals.org/).

  9. The 2016 database issue of Nucleic Acids Research and an updated molecular biology database collection.

    Science.gov (United States)

    Rigden, Daniel J; Fernández-Suárez, Xosé M; Galperin, Michael Y

    2016-01-04

    The 2016 Database Issue of Nucleic Acids Research starts with overviews of the resources provided by three major bioinformatics centers, the U.S. National Center for Biotechnology Information (NCBI), the European Bioinformatics Institute (EMBL-EBI) and Swiss Institute for Bioinformatics (SIB). Also included are descriptions of 62 new databases and updates on 95 databases that have been previously featured in NAR plus 17 previously described elsewhere. A number of papers in this issue deal with resources on nucleic acids, including various kinds of non-coding RNAs and their interactions, molecular dynamics simulations of nucleic acid structure, and two databases of super-enhancers. The protein database section features important updates on the EBI's Pfam, PDBe and PRIDE databases, as well as a variety of resources on pathways, metabolomics and metabolic modeling. This issue also includes updates on popular metagenomics resources, such as MG-RAST, EBI Metagenomics, and probeBASE, as well as a newly compiled Human Pan-Microbe Communities database. A significant fraction of the new and updated databases are dedicated to the genetic basis of disease, primarily cancer, and various aspects of drug research, including resources for patented drugs, their side effects, withdrawn drugs, and potential drug targets. A further six papers present updated databases of various antimicrobial and anticancer peptides. The entire Database Issue is freely available online on the Nucleic Acids Research website (http://nar.oxfordjournals.org/). The NAR online Molecular Biology Database Collection, http://www.oxfordjournals.org/nar/database/c/, has been updated with the addition of 88 new resources and removal of 23 obsolete websites, which brought the current listing to 1685 databases.

  10. Statewide Transition Database: Update. Second Edition.

    Science.gov (United States)

    Repetto, Jeanne B.; And Others

    Project RETAIN (Retention in Education Technical Assistance and Information Network) is a Florida project that assists school districts through identification and dissemination of effective practices that keep students with mild disabilities in school. One part of the project was the development of a database of school district efforts in the area…

  11. Update History of This Database - RGP physicalmap | 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 RGP physical...map Update History of This Database Date Update contents 2015/07/07 RGP physicalmap English arch...ive site is opened. 2013/04/01 The URL of RGP physicalmap is changed to ... http://rgp.dna.affrc.go.jp/E/publicdata/physicalmap/physical...map.html . 1997/07/09 RGP physicalmap (http://rgp.dna.affrc.go.jp/publicdata/phys...icalmap/physicalmap.html) is opened. Joomla SEF URLs by Artio About This Database D

  12. CyanoBase: the cyanobacteria genome database update 2010.

    Science.gov (United States)

    Nakao, Mitsuteru; Okamoto, Shinobu; Kohara, Mitsuyo; Fujishiro, Tsunakazu; Fujisawa, Takatomo; Sato, Shusei; Tabata, Satoshi; Kaneko, Takakazu; Nakamura, Yasukazu

    2010-01-01

    CyanoBase (http://genome.kazusa.or.jp/cyanobase) is the genome database for cyanobacteria, which are model organisms for photosynthesis. The database houses cyanobacteria species information, complete genome sequences, genome-scale experiment data, gene information, gene annotations and mutant information. In this version, we updated these datasets and improved the navigation and the visual display of the data views. In addition, a web service API now enables users to retrieve the data in various formats with other tools, seamlessly.

  13. Updated site compilation of the Latin American Pollen Database

    NARCIS (Netherlands)

    S.G.A. Flantua; H. Hooghiemstra; E.C. Grimm; H. Behling; M.B Bush; C. González-Arrango; W.D. Gosling; M.-P. Ledru; S. Lozano-Garciá; A. Maldonado; A.R. Prieto; V. Rull; J.H. van Boxel

    2015-01-01

    The updated inventory of the Latin American Pollen Database (LAPD) offers a wide range of new insights. This paper presents a systematic compilation of palynological research in Latin America. A comprehensive inventory of publications in peer-reviewed and grey literature shows a major expansion of s

  14. Update of the androgen receptor gene mutations database.

    Science.gov (United States)

    Gottlieb, B; Beitel, L K; Lumbroso, R; Pinsky, L; Trifiro, M

    1999-01-01

    The current version of the androgen receptor (AR) gene mutations database is described. The total number of reported mutations has risen from 309 to 374 during the past year. We have expanded the database by adding information on AR-interacting proteins; and we have improved the database by identifying those mutation entries that have been updated. Mutations of unknown significance have now been reported in both the 5' and 3' untranslated regions of the AR gene, and in individuals who are somatic mosaics constitutionally. In addition, single nucleotide polymorphisms, including silent mutations, have been discovered in normal individuals and in individuals with male infertility. A mutation hotspot associated with prostatic cancer has been identified in exon 5. The database is available on the internet (http://www.mcgill.ca/androgendb/), from EMBL-European Bioinformatics Institute (ftp.ebi.ac.uk/pub/databases/androgen), or as a Macintosh FilemakerPro or Word file (MC33@musica.mcgill.ca).

  15. The mouse Gene Expression Database (GXD): 2017 update

    Science.gov (United States)

    Finger, Jacqueline H.; Smith, Constance M.; Hayamizu, Terry F.; McCright, Ingeborg J.; Xu, Jingxia; Law, Meiyee; Shaw, David R.; Baldarelli, Richard M.; Beal, Jon S.; Blodgett, Olin; Campbell, Jeff W.; Corbani, Lori E.; Lewis, Jill R.; Forthofer, Kim L.; Frost, Pete J.; Giannatto, Sharon C.; Hutchins, Lucie N.; Miers, Dave B.; Motenko, Howie; Stone, Kevin R.; Eppig, Janan T.; Kadin, James A.; Richardson, Joel E.; Ringwald, Martin

    2017-01-01

    The Gene Expression Database (GXD; www.informatics.jax.org/expression.shtml) is an extensive and well-curated community resource of mouse developmental expression information. Through curation of the scientific literature and by collaborations with large-scale expression projects, GXD collects and integrates data from RNA in situ hybridization, immunohistochemistry, RT-PCR, northern blot and western blot experiments. Expression data from both wild-type and mutant mice are included. The expression data are combined with genetic and phenotypic data in Mouse Genome Informatics (MGI) and made readily accessible to many types of database searches. At present, GXD includes over 1.5 million expression results and more than 300 000 images, all annotated with detailed and standardized metadata. Since our last report in 2014, we have added a large amount of data, we have enhanced data and database infrastructure, and we have implemented many new search and display features. Interface enhancements include: a new Mouse Developmental Anatomy Browser; interactive tissue-by-developmental stage and tissue-by-gene matrix views; capabilities to filter and sort expression data summaries; a batch search utility; gene-based expression overviews; and links to expression data from other species. PMID:27899677

  16. 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

  17. The IACOB spectroscopic database: recent updates and first data release

    CERN Document Server

    Simón-Díaz, S; Apellániz, J Maíz; Castro, N; Herrero, A; Garcia, M; Pérez-Prieto, J A; Caon, N; Alacid, J M; Camacho, I; Dorda, R; Godart, M; González-Fernández, C; Holgado, G; Rübke, K

    2015-01-01

    The IACOB project is an ambitious long-term project which is contributing to step forward in our knowledge about the physical properties and evolution of Galactic massive stars. The project aims at building a large database of high-resolution, multi-epoch, spectra of Galactic OB stars, and the scientific exploitation of the database using state-of-the-art models and techniques. In this proceeding, we summarize the latest updates of the IACOB spectroscopic database and highlight some of the first scientific results from the IACOB project; we also announce the first data release and the first public version of the iacob-broad tool for the line-broadening characterization of OB-type spectra.

  18. Update History of This Database - BodyParts3D | 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 BodyParts...s updated. 2010/03/29 BodyParts3D English archive site is opened. 2009/02/09 3D d...base Site Policy | Contact Us Update History of This Database - BodyParts3D | LSDB Archive ...

  19. Comprehensive T-Matrix Reference Database: A 2012 - 2013 Update

    Science.gov (United States)

    Mishchenko, Michael I.; Videen, Gorden; Khlebtsov, Nikolai G.; Wriedt, Thomas

    2013-01-01

    The T-matrix method is one of the most versatile, efficient, and accurate theoretical techniques widely used for numerically exact computer calculations of electromagnetic scattering by single and composite particles, discrete random media, and particles imbedded in complex environments. This paper presents the fifth update to the comprehensive database of peer-reviewed T-matrix publications initiated by us in 2004 and includes relevant publications that have appeared since 2012. It also lists several earlier publications not incorporated in the original database, including Peter Waterman's reports from the 1960s illustrating the history of the T-matrix approach and demonstrating that John Fikioris and Peter Waterman were the true pioneers of the multi-sphere method otherwise known as the generalized Lorenz - Mie theory.

  20. The BioGRID interaction database: 2017 update

    Science.gov (United States)

    Chatr-aryamontri, Andrew; Oughtred, Rose; Boucher, Lorrie; Rust, Jennifer; Chang, Christie; Kolas, Nadine K.; O'Donnell, Lara; Oster, Sara; Theesfeld, Chandra; Sellam, Adnane; Stark, Chris; Breitkreutz, Bobby-Joe; Dolinski, Kara; Tyers, Mike

    2017-01-01

    The Biological General Repository for Interaction Datasets (BioGRID: https://thebiogrid.org) is an open access database dedicated to the annotation and archival of protein, genetic and chemical interactions for all major model organism species and humans. As of September 2016 (build 3.4.140), the BioGRID contains 1 072 173 genetic and protein interactions, and 38 559 post-translational modifications, as manually annotated from 48 114 publications. This dataset represents interaction records for 66 model organisms and represents a 30% increase compared to the previous 2015 BioGRID update. BioGRID curates the biomedical literature for major model organism species, including humans, with a recent emphasis on central biological processes and specific human diseases. To facilitate network-based approaches to drug discovery, BioGRID now incorporates 27 501 chemical–protein interactions for human drug targets, as drawn from the DrugBank database. A new dynamic interaction network viewer allows the easy navigation and filtering of all genetic and protein interaction data, as well as for bioactive compounds and their established targets. BioGRID data are directly downloadable without restriction in a variety of standardized formats and are freely distributed through partner model organism databases and meta-databases. PMID:27980099

  1. National Solar Radiation Database 1991-2005 Update: User's Manual

    Energy Technology Data Exchange (ETDEWEB)

    Wilcox, S.

    2007-04-01

    This manual describes how to obtain and interpret the data products from the updated 1991-2005 National Solar Radiation Database (NSRDB). This is an update of the original 1961-1990 NSRDB released in 1992.

  2. The proteome browser web portal.

    Science.gov (United States)

    Goode, Robert J A; Yu, Simon; Kannan, Anitha; Christiansen, Jeffrey H; Beitz, Anthony; Hancock, William S; Nice, Edouard; Smith, A Ian

    2013-01-01

    In 2010, the Human Proteome Organization launched the Human Proteome Project (HPP), aimed at identifying and characterizing the proteome of the human body. To support complete coverage, one arm of the project will take a gene- or chromosomal-centric strategy (C-HPP) aimed at identifying at least one protein product from each protein-coding gene. Despite multiple large international biological databases housing genomic and protein data, there is currently no single system that integrates updated pertinent information from each of these data repositories and assembles the information into a searchable format suitable for the type of global proteomics effort proposed by the C-HPP. We have undertaken the goal of producing a data integration and analysis software system and browser for the C-HPP effort and of making data collections from this resource discoverable through metadata repositories, such as Australian National Data Service's Research Data Australia. Here we present our vision and progress toward the goal of developing a comprehensive data integration and analysis software tool that provides a snapshot of currently available proteomic related knowledge around each gene product, which will ultimately assist in analyzing biological function and the study of human physiology in health and disease.

  3. CNA’s Integrated Ship Database: Third Quarter CY 2013 Update

    Science.gov (United States)

    2014-10-01

    CNA’s Integrated Ship Database Third Quarter CY 2013 Update Gregory N. Suess • Lynette A. McClain DIS-2014-U-007713-Final October 2014 This document...13 Changes in database content for this quarter . . . . . . . . . . 25 Routine update of source data...blank.ii Introduction Background In this CNA Interactive Software document, we present the update of our Integrated Ship Database (ISDB) for the third

  4. The UCSC Proteome Browser

    OpenAIRE

    Hsu, Fan; Tom H Pringle; Kuhn, Robert M.; Karolchik, Donna; Diekhans, Mark; Haussler, David; Kent, W. James

    2004-01-01

    The University of California Santa Cruz (UCSC) Proteome Browser provides a wealth of protein information presented in graphical images and with links to other protein-related Internet sites. The Proteome Browser is tightly integrated with the UCSC Genome Browser. For the first time, Genome Browser users have both the genome and proteome worlds at their fingertips simultaneously. The Proteome Browser displays tracks of protein and genomic sequences, exon structure, polarity, hydrophobicity, lo...

  5. Key Techniques for Dynamic Updating of National Fundamental Geographic Information Database

    Directory of Open Access Journals (Sweden)

    WANG Donghua

    2015-07-01

    Full Text Available One of the most important missions of fundamental surveying and mapping work is to keep the fundamental geographic information fresh. In this respect, National Administration of Surveying, Mapping and Geoinformation has launched the project of dynamic updating of national fundamental geographic information database since 2012, which aims to update 1:50 000, 1:250 000 and 1:1 000 000 national fundamental geographic information database continuously and quickly, by updating and publishing once a year. This paper introduces the general technical thinking of dynamic updating, states main technical methods, such as dynamic updating of fundamental database, linkage updating of derived databases, and multi-tense database management and service and so on, and finally introduces main technical characteristics and engineering applications.

  6. A Survey of Database Updates%数据库更新研究现状综述

    Institute of Scientific and Technical Information of China (English)

    杨戈; 李磊

    2000-01-01

    This article explains database updates in view of EDB and IDB for the first time. The core issues of database updates-update rules and update languages-are generally introduced. Also the deficiency and the future research of updates are pointed out.

  7. CNA’s Integrated Ship Database: Second Quarter CY 2013 Update

    Science.gov (United States)

    2014-10-01

    CNA’s Integrated Ship Database Second Quarter CY 2013 Update Gregory N. Suess • Lynette A. McClain DIS-2014-U-007712-Final October 2014 Report...REPORT TYPE 3. DATES COVERED 00-00-2014 to 00-00-2014 4. TITLE AND SUBTITLE CNA’s Integrated Ship Database: Second Quarter CY 2013 Update 5a...content for this quarter . . . . . . . . . . 25 Routine update of source data . . . . . . . . . . . . . 25 Changes in the ship

  8. CNA’s Integrated Ship Database, Fourth Quarter 2011 Update

    Science.gov (United States)

    2012-09-01

    intentionally left blank.2 Changes in this update In the Excel file Change to Excel 2010 With this update, we’ve moved from Microsoft Excel 2003 to Excel 2010... Microsoft Visual Basic for Applications window by clicking on the Visual Basic button on the Developer Tab or by using the keyboard shortcut : Alt...10 is a view of the Archive page. Under the 2011 updates, you can see two links for the December 2011 files: one for the Microsoft Excel Macro

  9. Entire Sequence - RMG | 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 ...us RAP-DB genome browser. Data file File name: rmg_seq.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rmg/...n Download License Update History of This Database Site Policy | Contact Us Entire Sequence - RMG | LSDB Archive ...

  10. National Solar Radiation Database 1991-2010 Update: User's Manual

    Energy Technology Data Exchange (ETDEWEB)

    Wilcox, S. M.

    2012-08-01

    This user's manual provides information on the updated 1991-2010 National Solar Radiation Database. Included are data format descriptions, data sources, production processes, and information about data uncertainty.

  11. Integrated genome browser: visual analytics platform for genomics

    OpenAIRE

    2016-01-01

    Motivation: Genome browsers that support fast navigation through vast datasets and provide interactive visual analytics functions can help scientists achieve deeper insight into biological systems. Toward this end, we developed Integrated Genome Browser (IGB), a highly configurable, interactive and fast open source desktop genome browser. Results: Here we describe multiple updates to IGB, including all-new capabilities to display and interact with data from high-throughput sequencing experime...

  12. The Database of Ribosomal Cross-links: an update.

    OpenAIRE

    Baranov, P V; Kubarenko, A V; Gurvich, O L; Shamolina, T A; Brimacombe, R

    1999-01-01

    The Database of Ribosomal Cross-links (DRC) was created in 1997. Here we describe new data incorporated into this database and several new features of the DRC. The DRC is freely available via World Wide Web at http://visitweb.com/database/ or http://www. mpimg-berlin-dahlem.mpg.de/ approximately ag_ribo/ag_brimacombe/drc/

  13. Propagating Updates of Residential Areas in Multi-Representation Databases Using Constrained Delaunay Triangulations

    Directory of Open Access Journals (Sweden)

    Xinchang Zhang

    2016-06-01

    Full Text Available Updating topographic maps in multi-representation databases is crucial to a number of applications. An efficient way to update topographic maps is to propagate the updates from large-scale maps to small-scale maps. Because objects are often portrayed differently in maps of different scales, it is a complicated process to produce multi-scale topographic maps that meet specific cartographical criteria. In this study, we propose a new approach to update small-scale maps based on updated large-scale maps. We first group spatially-related objects in multi-scale maps and decompose the large-scale objects into triangles based on constrained Delaunay triangulation. We then operate the triangles and construct small-scale objects by accounting for cartographical generalization rules. In addition, we apply the Tabu Search algorithm to search for the optimal sequences when constructing small-scale objects. A case study was conducted by applying the developed method to update residential areas at varied scales. We found the proposed method could effectively update small-scale maps while maintaining the shapes and positions of large-scale objects. Our developed method allows for parallel processing of update propagation because it operates grouped objects together, thus possesses computational advantages over the sequential updating method in areas with high building densities. Although the method proposed in this study requires further tests, it shows promise with respect to automatic updates of polygon data in the multi-representation databases.

  14. Spatial coincidence modelling, automated database updating and data consistency in vector GIS.

    NARCIS (Netherlands)

    Kufoniyi, O.

    1995-01-01

    This thesis presents formal approaches for automated database updating and consistency control in vector- structured spatial databases. To serve as a framework, a conceptual data model is formalized for the representation of geo-data from multiple map layers in which a map layer denotes a set of ter

  15. Progress on Updating the 1961-1990 National Solar Radiation Database: Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Renne, D.; Wilcox, S.; Marion, B.; George, R.; Myers, D.; Stoffel, T.; Perez, R.; Stackhouse, P. Jr.

    2003-04-01

    The 1961-1990 National Solar Radiation Data Base (NSRDB) provides a 30-year climate summary and solar characterization of 239 locations throughout the United States. Over the past several years, the National Renewable Energy Laboratory (NREL) has received numerous inquiries from a range of constituents as to whether an update of the database to include the 1990s will be developed. However, there are formidable challenges to creating an update of the serially complete station-specific database for the 1971-2000 period. During the 1990s, the National Weather Service changed its observational procedures from a human-based to an automated system, resulting in the loss of important input variables to the model used to complete the 19611990 NSRDB. As a result, alternative techniques are required for an update that covers the 1990s. This paper examines several alternative approaches for creating this update and describes preliminary NREL plans for implementing the update.

  16. 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

  17. An application of TOPSIS for ranking internet web browsers

    Directory of Open Access Journals (Sweden)

    Shahram Rostampour

    2012-07-01

    Full Text Available Web browser is one of the most important internet facilities for surfing the internet. A good web browser must incorporate literally tens of features such as integrated search engine, automatic updates, etc. Each year, ten web browsers are formally introduced as top best reviewers by some organizations. In this paper, we propose the implementation of TOPSIS technique to rank ten web browsers. The proposed model of this paper uses five criteria including speed, features, security, technical support and supported configurations. In terms of speed, Safari is the best web reviewer followed by Google Chrome and Internet Explorer while Opera is the best web reviewer when we look into 20 different features. We have also ranked these web browsers using all five categories together and the results indicate that Opera, Internet explorer, Firefox and Google Chrome are the best web browsers to be chosen.

  18. A New Communication Theory on Complex Information and a Groundbreaking New Declarative Method to Update Object Databases

    OpenAIRE

    Virkkunen, Heikki

    2016-01-01

    In this article I introduce a new communication theory for complex information represented as a direct graph of nodes. In addition, I introduce an application for the theory, a new radical method, embed, that can be used to update object databases declaratively. The embed method revolutionizes updating of object databases. One embed method call can replace dozens of lines of complicated updating code in a traditional client program of an object database, which is a huge improvement. As a decl...

  19. 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

  20. Natural Language Access to Databases: Interpreting Update Requests

    Science.gov (United States)

    1981-09-30

    Database Systems" TR 11-79, Center for Research in Cjtnputing Technology, Harvard University, 1979. Frege, Gottlob : "On Sense and Reference": trans...Max Black, in Translations from the Philosophical V _ 22 Writinge of Gottlob Frege, P. Geach and M1. Black, eds., Bltackwell, Oxford, 1952 Hammer

  1. 77 FR 71089 - Pilot Loading of Aeronautical Database Updates

    Science.gov (United States)

    2012-11-29

    ... restrictions, manpower and fuel consumption. If the aircraft is operated with an expired database, the pilot... location, the operator must absorb the costs of additional fuel consumption, and valuable time can be lost... meet shared challenges involving health, safety, labor, security, environmental, and other issues...

  2. Rasmuson Library DVD Browser: Fun with Screen Scraping and Drupal

    Directory of Open Access Journals (Sweden)

    Mark Morlino

    2008-12-01

    Full Text Available The DVD Browser is a simple application that lets library patrons browse movie covers, titles, and reviews. It works by screen scraping the the Rasmuson Library catalog for DVD movies and dumps the data into a Drupal MySQL database. This paper describes the process of setting up the DVD Browser.

  3. An Updating System for the Gridded Population Database of China Based on Remote Sensing, GIS and Spatial Database Technologies

    Directory of Open Access Journals (Sweden)

    Xiaohuan Yang

    2009-02-01

    Full Text Available The spatial distribution of population is closely related to land use and land cover (LULC patterns on both regional and global scales. Population can be redistributed onto geo-referenced square grids according to this relation. In the past decades, various approaches to monitoring LULC using remote sensing and Geographic Information Systems (GIS have been developed, which makes it possible for efficient updating of geo-referenced population data. A Spatial Population Updating System (SPUS is developed for updating the gridded population database of China based on remote sensing, GIS and spatial database technologies, with a spatial resolution of 1 km by 1 km. The SPUS can process standard Moderate Resolution Imaging Spectroradiometer (MODIS L1B data integrated with a Pattern Decomposition Method (PDM and an LULC-Conversion Model to obtain patterns of land use and land cover, and provide input parameters for a Population Spatialization Model (PSM. The PSM embedded in SPUS is used for generating 1 km by 1 km gridded population data in each population distribution region based on natural and socio-economic variables. Validation results from finer township-level census data of Yishui County suggest that the gridded population database produced by the SPUS is reliable.

  4. 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.

  5. The ChEMBL bioactivity database: an update.

    Science.gov (United States)

    Bento, A Patrícia; Gaulton, Anna; Hersey, Anne; Bellis, Louisa J; Chambers, Jon; Davies, Mark; Krüger, Felix A; Light, Yvonne; Mak, Lora; McGlinchey, Shaun; Nowotka, Michal; Papadatos, George; Santos, Rita; Overington, John P

    2014-01-01

    ChEMBL is an open large-scale bioactivity database (https://www.ebi.ac.uk/chembl), previously described in the 2012 Nucleic Acids Research Database Issue. Since then, a variety of new data sources and improvements in functionality have contributed to the growth and utility of the resource. In particular, more comprehensive tracking of compounds from research stages through clinical development to market is provided through the inclusion of data from United States Adopted Name applications; a new richer data model for representing drug targets has been developed; and a number of methods have been put in place to allow users to more easily identify reliable data. Finally, access to ChEMBL is now available via a new Resource Description Framework format, in addition to the web-based interface, data downloads and web services.

  6. A New Primary Lazy Update Propagation Protocol for Replicated Databases

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    This paper proposes a new primary lazy update protocol, PTCS (Primary Transaction Commit Schedule). In the PTCS protocol, a serializable primary transaction schedule is generated firstly and then the secondary transactions are committed according to the serializable primary transaction schedule. PTCS protocol can guarantee serializability if the data copy graph contains no directed circles. It can also be extended to eliminate all requirements on the data copy graph. Compared to earlier works, PTCS protocol not only imposes a much weaker requirement on the data placement, but also avoids the deadlock caused by transaction waits and extra message overhead. The performance experiments show that the degradation of the performance caused by the replica management of the PTCS protocol is tolerable.

  7. Engineering the ATLAS TAG Browser

    CERN Document Server

    Zhang, Q; The ATLAS collaboration

    2011-01-01

    ELSSI is a web-based event metadata (TAG) browser and event-level selection service for ATLAS. TAGs from all ATLAS physics and Monte Carlo data sets are routinely loaded into Oracle databases as an integral part of event processing. As data volumes increase, more and more sites are joining the distributed TAG data hosting topology. Meanwhile, TAG content and database schemata continue to evolve as new user requirements and additional sources of metadata emerge. All of this has posed many challenges to the development of ELSSI, which must support vast amounts of TAG data while source, content, geographic locations, and user query patterns may change over time. In this paper, we describe some of the challenges encountered in the process of developing ELSSI, and the software engineering strategies adopted to address those challenges. Approaches to management of access to data, browsing, data rendering, query building, query validation, execution, connection management, and communication with auxiliary services a...

  8. An update of a national database of low-level radioactive waste in Canada

    Energy Technology Data Exchange (ETDEWEB)

    De, P.L.; Barker, R.C. [Atomic Energy Canada Ltd. Research, Ottawa, Ontario (Canada). Low-Level Radioactive Waste Management Office

    1993-03-01

    This paper gives an overview and update of a national database of low-level radioactive waste in Canada. To provide a relevant perspective, Canadian data are compared with US data on annual waste arisings and with disposal initiatives of the US compacts and states. Presented also is an assessment of the data and its implications for disposal solutions in Canada.

  9. An update of the DEF database of protein fold class predictions

    DEFF Research Database (Denmark)

    Reczko, Martin; Karras, Dimitris; Bohr, Henrik

    1997-01-01

    An update is given on the Database of Expected Fold classes (DEF) that contains a collection of fold-class predictions made from protein sequences and a mail server that provides new predictions for new sequences. To any given sequence one of 49 fold-classes is chosen to classify the structure...

  10. The Genome Database for Rosaceae (GDR): year 10 update

    Science.gov (United States)

    Jung, Sook; Ficklin, Stephen P.; Lee, Taein; Cheng, Chun-Huai; Blenda, Anna; Zheng, Ping; Yu, Jing; Bombarely, Aureliano; Cho, Ilhyung; Ru, Sushan; Evans, Kate; Peace, Cameron; Abbott, Albert G.; Mueller, Lukas A.; Olmstead, Mercy A.; Main, Dorrie

    2014-01-01

    The Genome Database for Rosaceae (GDR, http:/www.rosaceae.org), the long-standing central repository and data mining resource for Rosaceae research, has been enhanced with new genomic, genetic and breeding data, and improved functionality. Whole genome sequences of apple, peach and strawberry are available to browse or download with a range of annotations, including gene model predictions, aligned transcripts, repetitive elements, polymorphisms, mapped genetic markers, mapped NCBI Rosaceae genes, gene homologs and association of InterPro protein domains, GO terms and Kyoto Encyclopedia of Genes and Genomes pathway terms. Annotated sequences can be queried using search interfaces and visualized using GBrowse. New expressed sequence tag unigene sets are available for major genera, and Pathway data are available through FragariaCyc, AppleCyc and PeachCyc databases. Synteny among the three sequenced genomes can be viewed using GBrowse_Syn. New markers, genetic maps and extensively curated qualitative/Mendelian and quantitative trait loci are available. Phenotype and genotype data from breeding projects and genetic diversity projects are also included. Improved search pages are available for marker, trait locus, genetic diversity and publication data. New search tools for breeders enable selection comparison and assistance with breeding decision making. PMID:24225320

  11. Genetic basis of congenital erythrocytosis: mutation update and online databases.

    Science.gov (United States)

    Bento, Celeste; Percy, Melanie J; Gardie, Betty; Maia, Tabita Magalhães; van Wijk, Richard; Perrotta, Silverio; Della Ragione, Fulvio; Almeida, Helena; Rossi, Cedric; Girodon, François; Aström, Maria; Neumann, Drorit; Schnittger, Susanne; Landin, Britta; Minkov, Milen; Randi, Maria Luigia; Richard, Stéphane; Casadevall, Nicole; Vainchenker, William; Rives, Susana; Hermouet, Sylvie; Ribeiro, M Leticia; McMullin, Mary Frances; Cario, Holger; Chauveau, Aurelie; Gimenez-Roqueplo, Anne-Paule; Bressac-de-Paillerets, Brigitte; Altindirek, Didem; Lorenzo, Felipe; Lambert, Frederic; Dan, Harlev; Gad-Lapiteau, Sophie; Catarina Oliveira, Ana; Rossi, Cédric; Fraga, Cristina; Taradin, Gennadiy; Martin-Nuñez, Guillermo; Vitória, Helena; Diaz Aguado, Herrera; Palmblad, Jan; Vidán, Julia; Relvas, Luis; Ribeiro, Maria Leticia; Luigi Larocca, Maria; Luigia Randi, Maria; Pedro Silveira, Maria; Percy, Melanie; Gross, Mor; Marques da Costa, Ricardo; Beshara, Soheir; Ben-Ami, Tal; Ugo, Valérie

    2014-01-01

    Congenital erythrocytosis (CE), or congenital polycythemia, represents a rare and heterogeneous clinical entity. It is caused by deregulated red blood cell production where erythrocyte overproduction results in elevated hemoglobin and hematocrit levels. Primary congenital familial erythrocytosis is associated with low erythropoietin (Epo) levels and results from mutations in the Epo receptor gene (EPOR). Secondary CE arises from conditions causing tissue hypoxia and results in increased Epo production. These include hemoglobin variants with increased affinity for oxygen (HBB, HBA mutations), decreased production of 2,3-bisphosphoglycerate due to BPGM mutations, or mutations in the genes involved in the hypoxia sensing pathway (VHL, EPAS1, and EGLN1). Depending on the affected gene, CE can be inherited either in an autosomal dominant or recessive mode, with sporadic cases arising de novo. Despite recent important discoveries in the molecular pathogenesis of CE, the molecular causes remain to be identified in about 70% of the patients. With the objective of collecting all the published and unpublished cases of CE the COST action MPN&MPNr-Euronet developed a comprehensive Internet-based database focusing on the registration of clinical history, hematological, biochemical, and molecular data (http://www.erythrocytosis.org/). In addition, unreported mutations are also curated in the corresponding Leiden Open Variation Database.

  12. The Genome Database for Rosaceae (GDR): year 10 update.

    Science.gov (United States)

    Jung, Sook; Ficklin, Stephen P; Lee, Taein; Cheng, Chun-Huai; Blenda, Anna; Zheng, Ping; Yu, Jing; Bombarely, Aureliano; Cho, Ilhyung; Ru, Sushan; Evans, Kate; Peace, Cameron; Abbott, Albert G; Mueller, Lukas A; Olmstead, Mercy A; Main, Dorrie

    2014-01-01

    The Genome Database for Rosaceae (GDR, http:/www.rosaceae.org), the long-standing central repository and data mining resource for Rosaceae research, has been enhanced with new genomic, genetic and breeding data, and improved functionality. Whole genome sequences of apple, peach and strawberry are available to browse or download with a range of annotations, including gene model predictions, aligned transcripts, repetitive elements, polymorphisms, mapped genetic markers, mapped NCBI Rosaceae genes, gene homologs and association of InterPro protein domains, GO terms and Kyoto Encyclopedia of Genes and Genomes pathway terms. Annotated sequences can be queried using search interfaces and visualized using GBrowse. New expressed sequence tag unigene sets are available for major genera, and Pathway data are available through FragariaCyc, AppleCyc and PeachCyc databases. Synteny among the three sequenced genomes can be viewed using GBrowse_Syn. New markers, genetic maps and extensively curated qualitative/Mendelian and quantitative trait loci are available. Phenotype and genotype data from breeding projects and genetic diversity projects are also included. Improved search pages are available for marker, trait locus, genetic diversity and publication data. New search tools for breeders enable selection comparison and assistance with breeding decision making.

  13. A recovery method using recently updated record information in shared-nothing spatial database cluster

    Institute of Scientific and Technical Information of China (English)

    JEONG Myeong-ho; JANG Yong-ll; PARK Soon-young; BAE Hae-young

    2004-01-01

    A shared-nothing spatial database cluster is system that provides continuous service even if some system failure happens in any node. So, an efficient recovery of system failure is very important. Generally, the existing method recovers the failed node by using both cluster log and local log. This method, however, cause several problems that increase communication cost and size of cluster log. This paper proposes novel recovery method using recently updated record information in shared-nothing spatial database cluster. The proposed technique utilizes update information of records and pointers of actual data. This makes a reduction of log size and communication cost.Consequently, this reduces recovery time of failed node due to less processing of update operations.

  14. The COG database: an updated version includes eukaryotes

    Directory of Open Access Journals (Sweden)

    Sverdlov Alexander V

    2003-09-01

    Full Text Available Abstract Background The availability of multiple, essentially complete genome sequences of prokaryotes and eukaryotes spurred both the demand and the opportunity for the construction of an evolutionary classification of genes from these genomes. Such a classification system based on orthologous relationships between genes appears to be a natural framework for comparative genomics and should facilitate both functional annotation of genomes and large-scale evolutionary studies. Results We describe here a major update of the previously developed system for delineation of Clusters of Orthologous Groups of proteins (COGs from the sequenced genomes of prokaryotes and unicellular eukaryotes and the construction of clusters of predicted orthologs for 7 eukaryotic genomes, which we named KOGs after eukaryotic orthologous groups. The COG collection currently consists of 138,458 proteins, which form 4873 COGs and comprise 75% of the 185,505 (predicted proteins encoded in 66 genomes of unicellular organisms. The eukaryotic orthologous groups (KOGs include proteins from 7 eukaryotic genomes: three animals (the nematode Caenorhabditis elegans, the fruit fly Drosophila melanogaster and Homo sapiens, one plant, Arabidopsis thaliana, two fungi (Saccharomyces cerevisiae and Schizosaccharomyces pombe, and the intracellular microsporidian parasite Encephalitozoon cuniculi. The current KOG set consists of 4852 clusters of orthologs, which include 59,838 proteins, or ~54% of the analyzed eukaryotic 110,655 gene products. Compared to the coverage of the prokaryotic genomes with COGs, a considerably smaller fraction of eukaryotic genes could be included into the KOGs; addition of new eukaryotic genomes is expected to result in substantial increase in the coverage of eukaryotic genomes with KOGs. Examination of the phyletic patterns of KOGs reveals a conserved core represented in all analyzed species and consisting of ~20% of the KOG set. This conserved portion of the

  15. INTERNET: WEB BROWSER

    Directory of Open Access Journals (Sweden)

    Zainul Bakri

    2012-10-01

    Full Text Available Web browser merupakan alat bagi pengguna untuk melakukan penelusuran di lingkungan Internet baik berupa teks (hypertext maupun gambar, suara atau video (hypermedia yang tersusun secara sistematis dalam suatu Web. Dokumen/teks tersebut sering terdiri dari beberapa halarnan atau bahkan hanya 1 halaman, saling berhubungan dengan dokumen lain melalui tanda tertentu (hyperlink yang biasanya berbentuk huruf-huruf yang berwama lain dan lebih bercahaya atau 'highlighted'. Pengguna yang tertarik untuk mengetahui informasi dari dunia hiburan sampai dengan ilmu pengetahuan, cukup menunjuk dan menekan tombol mouse pada bagian tersebut dalam Web browser, sehingga tampilan akan berpindah dari dokumen satu ke dokumen lain.

  16. Setting up the JBrowse genome browser.

    Science.gov (United States)

    Skinner, Mitchell E; Holmes, Ian H

    2010-12-01

    JBrowse is a Web-based tool for visualizing genomic data. Unlike most other Web-base genome browsers, JBrowse exploits the capabilities of the user's Web browser to make scrolling and zooming fast and smooth. It supports the browsers used by almost all Internet users, and is relatively simple to install. JBrowse can utilize multiple types of data in a variety of common genomic data formats, including genomic feature data in bioperl databases, GFF files, BED files, and quantitative data in wiggle files. This unit describes how to obtain the JBrowse software, set it up on a Linux or Mac OS X computer running as a Web server, and incorporate genome annotation data from multiple sources into JBrowse. After completing the protocols described in this unit, the reader will have a Web site that other users can visit to browse the genomic data.

  17. Web Browser Programming

    OpenAIRE

    Luján Mora, Sergio

    2006-01-01

    Presentaciones del curso "Web Browser Programming" impartido en la Université M'Hamed Bougara (Bourmerdes, Argelia) en junio de 2006. Proyecto financiado por la Unión Europea: TEMPUS JEP-32102-2004, Licence Professionnelle Technologies des Applications Web (Professional License for Web Application Technologies).

  18. Decoding Technology: Web Browsers

    Science.gov (United States)

    Walker, Tim; Donohue, Chip

    2007-01-01

    More than ever, early childhood administrators are relying on the Internet for information. A key to becoming an exceptional Web "surfer" is getting to know the ins and outs of the Web browser being used. There are several options available, and almost all can be downloaded for free. However, many of the functions and features they offer are very…

  19. The Exoplanet Orbit Database II: Updates to exoplanets.org

    CERN Document Server

    Han, Eunkyu; Wright, Jason T; Feng, Y Katherina; Zhao, Ming; Brown, Jacob I; Hancock, Colin

    2014-01-01

    The Exoplanet Orbit Database (EOD) compiles orbital, transit, host star, and other parameters of robustly detected exoplanets reported in the peer-reviewed literature. The EOD can be navigated through the Exoplanet Data Explorer (EDE) Plotter and Table, available on the World Wide Web at exoplanets.org. The EOD contains data for 1492 confirmed exoplanets as of July 2014. The EOD descends from a table in Butler et al. (2002) and the Catalog of Nearby Exoplanets (Butler et al. 2006), and the first complete documentation for the EOD and the EDE was presented in Wright et al. (2011). In this work, we describe our work since then. We have expanded the scope of the EOD to include secondary eclipse parameters, asymmetric uncertainties, and expanded the EDE to include the sample of over 3000 Kepler Objects of Interest (KOIs), and other real planets without good orbital parameters (such as many of those detected by microlensing and imaging). Users can download the latest version of the entire EOD as a single comma sep...

  20. 基于浏览器和服务器架构的胃癌信息管理系统在临床中的应用%The clinical application of gastric cancer database based on Browser/Server

    Institute of Scientific and Technical Information of China (English)

    魏玉哲; 薛英威

    2015-01-01

    Objective To discuss the creation of gastric cancer information database based on Browser/Server structure,.and clinical application of such database to analyze recent data in our gastric center. Methods Microsoft SQL Server 2000 database management system was used to create our gastric cancer data base with Browser/Server as architecture. Using such database , clinicopathological characterritics and therapeutic outcomes of the gastric cancer patients in recent years were retrospectively analyzed. Results Untill now , clinicopathological and follow-up data of nearly 7500 gastric cancer patients were input in our database , the data input accuracy was above 95%. The functions of data retrieval , follow-up reminders and data output were convenient and efficient. According to the database of first half 2010 , the 5-year survival rate of non-operation patients and surgical patients were 2.4%(3/125)and 49.8%(142/285) respectively, of which radical resection patients reached 62.4%(133/213). According to the database of 2014, stageⅠ patients accounted for 27.5%(243/885),.stageⅡ 28.9%(256/885),.stage Ⅲ 39.9%(353/885), stageⅣ3.7%(33/885) among the all surgical patients. Conclusions The gastric cancer database combined with standardized electronic medical records is accurate to record and store medical records. Through such database, we can analyze big data conveniently and efficiently in order to investigate the clinicopathological characteristics and prognosis of gastric cancer patients , and conduct our clinic and research.%目的:构建基于浏览器和服务器(Browser/Server,B/S)架构的胃癌专业数据库,并应用此数据库初步分析胃癌临床病理资料。方法应用Microsoft SQL Server 2000数据库管理系统构建B/S 架构的胃癌数据库,应用此数据库,对胃癌病理学特征及治疗效果予以分析。结果到目前为止,共录入7499例胃癌患者病历资料,准确率在95%以上。该系统检索

  1. Update History of This Database - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available The Rice Growth Monitoring for The Phenotypic Functional Analysis Update History of This Database Date Updat...The Rice Growth Monitoring for the Phenotypic Functional Analysis English archive... site is opened. 2003/10/01 The Rice Growth Monitoring System for the Phenotypic Functional Analysis ( http:...date History of This Database - The Rice Growth Monitoring for The Phenotypic Functional Analysis | LSDB Archive ...

  2. Managing Time in Relational Databases How to Design, Update and Query Temporal Data

    CERN Document Server

    Johnston, Tom

    2010-01-01

    Managing Time in Relational Databases shows how to make the rich information content of bi-temporal data available to business users, while simplifying the design, maintenance and retrieval of that data. Metadata declarations eliminate the need to directly model temporal data. Temporal data maintenance is isolated in code that can be invoked to update bi-temporal data in any database and from any application program, across the enterprise. Anyone who can write queries against conventional data will be able to write queries against the bi-temporal data structures described in this book.

  3. A NEW PROCEDURE FOR FORESTRY DATABASE UPDATING WITH GIS AND REMOTE SENSING

    Directory of Open Access Journals (Sweden)

    Luis M. T. de Carvalho

    2003-07-01

    Full Text Available The aim of this study was to develop an automated, simple and flexibleprocedure for updating raster-based forestry database. Four modules compose the procedure:(1 location of changed sites, (2 quantification of changed area, (3 identification of the newland cover, and (4 database updating. Firstly, a difference image is decomposed with wavelettransforms in order to extract changed sites. Secondly, segmentation is performed on thedifference image. Thirdly, each changed pixel or each segmented region is assigned to theland cover class with the highest probability of membership. Then, the output is used toupdate the GIS layer where changes took place. This procedure was less sensitive togeometric and radiometric misregistration, and less dependent on ground truth, whencompared with post classification comparison and direct multidate classification.

  4. Update of a thermodynamic database for radionuclides to assist solubility limits calculation for performance assessment

    Energy Technology Data Exchange (ETDEWEB)

    Duro, L.; Grive, M.; Cera, E.; Domenech, C.; Bruno, J. (Enviros Spain S.L., Barcelona (ES))

    2006-12-15

    This report presents and documents the thermodynamic database used in the assessment of the radionuclide solubility limits within the SR-Can Exercise. It is a supporting report to the solubility assessment. Thermodynamic data are reviewed for 20 radioelements from Groups A and B, lanthanides and actinides. The development of this database is partially based on the one prepared by PSI and NAGRA. Several changes, updates and checks for internal consistency and completeness to the reference NAGRA-PSI 01/01 database have been conducted when needed. These modifications are mainly related to the information from the various experimental programmes and scientific literature available until the end of 2003. Some of the discussions also refer to a previous database selection conducted by Enviros Spain on behalf of ANDRA, where the reader can find additional information. When possible, in order to optimize the robustness of the database, the description of the solubility of the different radionuclides calculated by using the reported thermodynamic database is tested in front of experimental data available in the open scientific literature. When necessary, different procedures to estimate gaps in the database have been followed, especially accounting for temperature corrections. All the methodologies followed are discussed in the main text

  5. 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.

  6. Geothopica and the interactive analysis and visualization of the updated Italian National Geothermal Database

    Science.gov (United States)

    Trumpy, Eugenio; Manzella, Adele

    2017-02-01

    The Italian National Geothermal Database (BDNG), is the largest collection of Italian Geothermal data and was set up in the 1980s. It has since been updated both in terms of content and management tools: information on deep wells and thermal springs (with temperature > 30 °C) are currently organized and stored in a PostgreSQL relational database management system, which guarantees high performance, data security and easy access through different client applications. The BDNG is the core of the Geothopica web site, whose webGIS tool allows different types of user to access geothermal data, to visualize multiple types of datasets, and to perform integrated analyses. The webGIS tool has been recently improved by two specially designed, programmed and implemented visualization tools to display data on well lithology and underground temperatures. This paper describes the contents of the database and its software and data update, as well as the webGIS tool including the new tools for data lithology and temperature visualization. The geoinformation organized in the database and accessible through Geothopica is of use not only for geothermal purposes, but also for any kind of georesource and CO2 storage project requiring the organization of, and access to, deep underground data. Geothopica also supports project developers, researchers, and decision makers in the assessment, management and sustainable deployment of georesources.

  7. The Northwest Infrared (NWIR) gas-phase spectral database of industrial and environmental chemicals: Recent updates

    Energy Technology Data Exchange (ETDEWEB)

    Brauer, Carolyn S.; Johnson, Timothy J.; Blake, Thomas A.; Sharpe, Steven W.; Sams, Robert L.; Tonkyn, Russell G.

    2014-05-22

    With continuing improvements in both standoff- and point-sensing techniques, there is an ongoing need for high-quality infrared spectral databases. The Northwest Infrared Database (NWIR) contains quantitative, gas-phase infrared spectra of nearly 500 pure chemical species that can be used for a variety of applications such as atmospheric monitoring, biomass burning studies, etc. The data, recorded at 0.1 cm-1 resolution, are pressure broadened to one atmosphere (N2) in order to mimic atmospheric conditions. Each spectrum is a composite composed of multiple individual measurements. Recent updates to the database include over 60 molecules that are known or suspected biomass-burning effluents. Examples from this set of measurements will be presented and experimental details will be discussed in the context of the utility of NWIR for environmental applications.

  8. Updating Object for GIS Database Information Using High Resolution Satellite Images: a Case Study Zonguldak

    Science.gov (United States)

    Alkan, M.; Arca, D.; Bayik, Ç.; Marangoz, A. M.

    2011-09-01

    Nowadays Geographic Information Systems (GIS) uses Remote Sensing (RS) data for a lot of applications. One of the application areas is the updating of the GIS database using high resolution imagery. In this context high resolution satellite imagery data is very important for many applications areas today's and future. And also, high resolution satellite imagery data will be used in many applications for different purposes. Information systems needs to high resolution imagery data for updating. Updating is very important component for the any of the GIS systems. One of this area will be updated and kept alive GIS database information. High resolution satellite imagery is used with different data base which serve map information via internet and different aims of information systems applications in future topographic and cartographic information systems will very important in our country in this sense use of the satellite images will be unavoidable. In this study explain to how is acquired to satellite images and how is use this images in information systems for object and roads. Firstly, pan-sharpened two of the IKONOS's images have been produced by fusion of high resolution PAN and MS images using PCI Geomatica v9.1 software package. Automatic object extraction has been made using eCognition v4.0.6. On the other hand, these objects have been manually digitized from high resolution images using ArcGIS v9.3. software package. Application section of in this study, satellite images data will be compared each other and GIS objects and road database. It is also determined which data is useful in Geographic Information Systems. Finally, this article explains that integration of remote sensing technology and GIS applications.

  9. Occupational exposures to carcinogens in Italy: an update of CAREX database.

    Science.gov (United States)

    Mirabelli, Dario; Kauppinen, Timo

    2005-01-01

    To update estimates of the prevalence of occupational exposures to carcinogens in Italy, the 85 CAREX agents were re-assessed. The original exposure estimates in the CAREX database were updated, taking into account changes in exposure patterns and in numbers of employees by industrial class. The 21.8 million employees in Italy, 19.4 in industry and services, 2.4 in agriculture, had 4.2 million exposures. Prevalences of exposures were highest for environmental (passive) tobacco smoke (800,000 exposures), solar radiation (700,000), diesel engine exhaust (500,000), wood dust (280,000), silica (250,000), lead and inorganic lead compounds (230,000), benzene (180 000), hexavalent chromium compounds (160,000), glass wool (140,000), and PAHs (120,000). Exposures to carcinogens at work are still an issue in Italy and do not appear to be controlled as strictly as they should be.

  10. Laminin-database v.2.0: an update on laminins in health and neuromuscular disorders.

    Science.gov (United States)

    Golbert, Daiane C F; Santana-van-Vliet, Eliane; Mundstein, Alex S; Calfo, Vicente; Savino, Wilson; de Vasconcelos, Ana Tereza R

    2014-01-01

    The laminin (LM)-database, hosted at http://www.lm.lncc.br, was published in the NAR database 2011 edition. It was the first database that provided comprehensive information concerning a non-collagenous family of extracellular matrix proteins, the LMs. In its first version, this database contained a large amount of information concerning LMs related to health and disease, with particular emphasis on the haemopoietic system. Users can easily access several tabs for LMs and LM-related molecules, as well as LM nomenclatures and direct links to PubMed. The LM-database version 2.0 integrates data from several publications to achieve a more comprehensive knowledge of LMs in health and disease. The novel features include the addition of two new tabs, 'Neuromuscular Disorders' and 'miRNA--LM Relationship'. More specifically, in this updated version, an expanding set of data has been displayed concerning the role of LMs in neuromuscular and neurodegenerative diseases, as well as the putative involvement of microRNAs. Given the importance of LMs in several biological processes, such as cell adhesion, proliferation, differentiation, migration and cell death, this upgraded version expands for users a panoply of information, regarding complex molecular circuitries that involve LMs in health and disease, including neuromuscular and neurodegenerative disorders.

  11. Comprehensive Thematic T-Matrix Reference Database: A 2014-2015 Update

    Science.gov (United States)

    Mishchenko, Michael I.; Zakharova, Nadezhda; Khlebtsov, Nikolai G.; Videen, Gorden; Wriedt, Thomas

    2015-01-01

    The T-matrix method is one of the most versatile and efficient direct computer solvers of the macroscopic Maxwell equations and is widely used for the computation of electromagnetic scattering by single and composite particles, discrete random media, and particles in the vicinity of an interface separating two half-spaces with different refractive indices. This paper is the seventh update to the comprehensive thematic database of peer-reviewed T-matrix publications initiated by us in 2004 and includes relevant publications that have appeared since 2013. It also lists a number of earlier publications overlooked previously.

  12. Designing, Implementing, and Evaluating Secure Web Browsers

    Science.gov (United States)

    Grier, Christopher L.

    2009-01-01

    Web browsers are plagued with vulnerabilities, providing hackers with easy access to computer systems using browser-based attacks. Efforts that retrofit existing browsers have had limited success since modern browsers are not designed to withstand attack. To enable more secure web browsing, we design and implement new web browsers from the ground…

  13. UCSC genome browser tutorial.

    Science.gov (United States)

    Zweig, Ann S; Karolchik, Donna; Kuhn, Robert M; Haussler, David; Kent, W James

    2008-08-01

    The University of California Santa Cruz (UCSC) Genome Bioinformatics website consists of a suite of free, open-source, on-line tools that can be used to browse, analyze, and query genomic data. These tools are available to anyone who has an Internet browser and an interest in genomics. The website provides a quick and easy-to-use visual display of genomic data. It places annotation tracks beneath genome coordinate positions, allowing rapid visual correlation of different types of information. Many of the annotation tracks are submitted by scientists worldwide; the others are computed by the UCSC Genome Bioinformatics group from publicly available sequence data. It also allows users to upload and display their own experimental results or annotation sets by creating a custom track. The suite of tools, downloadable data files, and links to documentation and other information can be found at http://genome.ucsc.edu/.

  14. Web Browser Trends and Technologies.

    Science.gov (United States)

    Goodwin-Jones, Bob

    2000-01-01

    Discusses Web browsers and how their capabilities have been expanded, support for Web browsing on different devices (cell phones, palmtop computers, TV sets), and browser support for the next-generation Web authoring language, XML ("extensible markup language"). (Author/VWL)

  15. Eco-Health Relationship Browser

    Science.gov (United States)

    The Eco-Health Relationship Browser (Browser) is a web tool designed to portray, in an engaging and intuitive way, the linkages between ecosystems, their services, and potential health outcomes that have been associated with those services in the literature. It functions an inte...

  16. Voluntary fortification with folic acid in Spain: An updated food composition database.

    Science.gov (United States)

    Samaniego-Vaesken, M L; Alonso-Aperte, E; Varela-Moreiras, G

    2016-02-15

    Folic acid (FA) is a key vitamin in the prevention of many diseases including neural tube defects. In Spain, only voluntary FA food fortification is allowed and there is a lack of compositional data to assess the contribution of these products to population's dietary folate intakes. Since 2007, our group has been compiling and updating a FA fortified food composition database. FA levels were obtained from retailers in Madrid and information provided by manufacturers. FA was also quantified by an affinity chromatography-HPLC method. In the present study we recorded 375 products. Our results show a high variability in the declared FA levels amongst different products, and food groups, which is also dependant on the commercial brand. FA overages are commonly added by manufacturers to some fortified products. FA content label claims are missing in 64% of products. This database is a useful tool to manage FA fortified foods data but it is necessary to continuously update it for the sound evaluation and monitoring of population's FA dietary intakes.

  17. An Efficient Technique for Updating the Principal Component Analysis in Dynamic Databases

    Institute of Scientific and Technical Information of China (English)

    KuiCao; YucaiFeng

    2004-01-01

    Storage and retrieval of multimedia objects has become a requirement for many contemporary systems.For example,given an image database,one may want to retrieve all images that are similar to a query image.Asmany content-based retrieval techniques for digital imagery use a feature vector approach to represent image contents,it is desirable to reduce the dimensionality of the data,whilst maintaining as much of its original structure.Several dimensionality reduction techniques are available.The most popular one is PCA,which works well for static databases.In this paper,we present a novel scheme for performing PCA-based dimensionality reduction in dynamic databases.Instead of using the entire dataset,we only recompute the PCA transform matrix on the updating dataset.Note that the size of the updating dataset is usually much smaller than that of the entire data,this technique may reduce the PCA computation time complexity without losing exactness.In addition,the updates to the database are based on the existing dimensionality-reduced data vectors rather than the original high-dimensional data vectors,which may relieve the system overhead for the management of the original high-dimensional data.

  18. Research of Cadastral Data Modelling and Database Updating Based on Spatio-temporal Process

    Directory of Open Access Journals (Sweden)

    ZHANG Feng

    2016-02-01

    Full Text Available The core of modern cadastre management is to renew the cadastre database and keep its currentness,topology consistency and integrity.This paper analyzed the changes and their linkage of various cadastral objects in the update process.Combined object-oriented modeling technique with spatio-temporal objects' evolution express,the paper proposed a cadastral data updating model based on the spatio-temporal process according to people's thought.Change rules based on the spatio-temporal topological relations of evolution cadastral spatio-temporal objects are drafted and further more cascade updating and history back trace of cadastral features,land use and buildings are realized.This model implemented in cadastral management system-ReGIS.Achieved cascade changes are triggered by the direct driving force or perceived external events.The system records spatio-temporal objects' evolution process to facilitate the reconstruction of history,change tracking,analysis and forecasting future changes.

  19. /facet: A Generic Facet Browser Including Temporal and Spatial Visualization

    NARCIS (Netherlands)

    Hildebrand, M.

    2007-01-01

    A generic facet browser including temporal and spatial visualization. The existing MultimediaN Eculture demo is updated in two ways: improved visualization of the semantic timeline and added a natural language sentence generator for cluster headers. Relation search interface is also implemente

  20. APD2: the updated antimicrobial peptide database and its application in peptide design.

    Science.gov (United States)

    Wang, Guangshun; Li, Xia; Wang, Zhe

    2009-01-01

    The antimicrobial peptide database (APD, http://aps.unmc.edu/AP/main.php) has been updated and expanded. It now hosts 1228 entries with 65 anticancer, 76 antiviral (53 anti-HIV), 327 antifungal and 944 antibacterial peptides. The second version of our database (APD2) allows users to search peptide families (e.g. bacteriocins, cyclotides, or defensins), peptide sources (e.g. fish, frogs or chicken), post-translationally modified peptides (e.g. amidation, oxidation, lipidation, glycosylation or d-amino acids), and peptide binding targets (e.g. membranes, proteins, DNA/RNA, LPS or sugars). Statistical analyses reveal that the frequently used amino acid residues (>10%) are Ala and Gly in bacterial peptides, Cys and Gly in plant peptides, Ala, Gly and Lys in insect peptides, and Leu, Ala, Gly and Lys in amphibian peptides. Using frequently occurring residues, we demonstrate database-aided peptide design in different ways. Among the three peptides designed, GLK-19 showed a higher activity against Escherichia coli than human LL-37.

  1. THE SCHEME FOR THE DATABASE BUILDING AND UPDATING OF 1:10 000 DIGITAL ELEVATION MODELS

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    The National Bureau of Surveying and Mapping of China has planned to speed up the development of spatial data infrastructure (SDI) in the coming few years. This SDI consists of four types of digital products, i. e., digital orthophotos, digital elevation models,digital line graphs and digital raster graphs. For the DEM,a scheme for the database building and updating of 1:10 000 digital elevation models has been proposed and some experimental tests have also been accomplished. This paper describes the theoretical (and/or technical)background and reports some of the experimental results to support the scheme. Various aspects of the scheme such as accuracy, data sources, data sampling, spatial resolution, terrain modeling, data organization, etc are discussed.

  2. ConoServer: updated content, knowledge, and discovery tools in the conopeptide database.

    Science.gov (United States)

    Kaas, Quentin; Yu, Rilei; Jin, Ai-Hua; Dutertre, Sébastien; Craik, David J

    2012-01-01

    ConoServer (http://www.conoserver.org) is a database specializing in the sequences and structures of conopeptides, which are toxins expressed by marine cone snails. Cone snails are carnivorous gastropods, which hunt their prey using a cocktail of toxins that potently subvert nervous system function. The ability of these toxins to specifically target receptors, channels and transporters of the nervous system has attracted considerable interest for their use in physiological research and as drug leads. Since the founding publication on ConoServer in 2008, the number of entries in the database has nearly doubled, the interface has been redesigned and new annotations have been added, including a more detailed description of cone snail species, biological activity measurements and information regarding the identification of each sequence. Automatically updated statistics on classification schemes, three-dimensional structures, conopeptide-bearing species and endoplasmic reticulum signal sequence conservation trends, provide a convenient overview of current knowledge on conopeptides. Transcriptomics and proteomics have began generating massive numbers of new conopeptide sequences, and two dedicated tools have been recently implemented in ConoServer to standardize the analysis of conopeptide precursor sequences and to help in the identification by mass spectrometry of toxins whose sequences were predicted at the nucleic acid level.

  3. MatrixDB, the extracellular matrix interaction database: updated content, a new navigator and expanded functionalities.

    Science.gov (United States)

    Launay, G; Salza, R; Multedo, D; Thierry-Mieg, N; Ricard-Blum, S

    2015-01-01

    MatrixDB (http://matrixdb.ibcp.fr) is a freely available database focused on interactions established by extracellular proteins and polysaccharides. It is an active member of the International Molecular Exchange (IMEx) consortium and has adopted the PSI-MI standards for annotating and exchanging interaction data, either at the MIMIx or IMEx level. MatrixDB content has been updated by curation and by importing extracellular interaction data from other IMEx databases. Other major changes include the creation of a new website and the development of a novel graphical navigator, iNavigator, to build and expand interaction networks. Filters may be applied to build sub-networks based on a list of biomolecules, a specified interaction detection method and/or an expression level by tissue, developmental stage, and health state (UniGene data). Any molecule of the network may be selected and its partners added to the network at any time. Networks may be exported under Cytoscape and tabular formats and as images, and may be saved for subsequent re-use.

  4. Enzyme kinetics informatics: from instrument to browser.

    Science.gov (United States)

    Swainston, Neil; Golebiewski, Martin; Messiha, Hanan L; Malys, Naglis; Kania, Renate; Kengne, Sylvestre; Krebs, Olga; Mir, Saqib; Sauer-Danzwith, Heidrun; Smallbone, Kieran; Weidemann, Andreas; Wittig, Ulrike; Kell, Douglas B; Mendes, Pedro; Müller, Wolfgang; Paton, Norman W; Rojas, Isabel

    2010-09-01

    A limited number of publicly available resources provide access to enzyme kinetic parameters. These have been compiled through manual data mining of published papers, not from the original, raw experimental data from which the parameters were calculated. This is largely due to the lack of software or standards to support the capture, analysis, storage and dissemination of such experimental data. Introduced here is an integrative system to manage experimental enzyme kinetics data from instrument to browser. The approach is based on two interrelated databases: the existing SABIO-RK database, containing kinetic data and corresponding metadata, and the newly introduced experimental raw data repository, MeMo-RK. Both systems are publicly available by web browser and web service interfaces and are configurable to ensure privacy of unpublished data. Users of this system are provided with the ability to view both kinetic parameters and the experimental raw data from which they are calculated, providing increased confidence in the data. A data analysis and submission tool, the kineticswizard, has been developed to allow the experimentalist to perform data collection, analysis and submission to both data resources. The system is designed to be extensible, allowing integration with other manufacturer instruments covering a range of analytical techniques.

  5. The Database for Astronomical Spectroscopy - Updates, Additions and Plans for Splatalogue for Alma Full Science Operations

    Science.gov (United States)

    Remijan, Anthony; Seifert, Nathan A.; McGuire, Brett A.

    2016-06-01

    For the past 10 years, Splatalogue has been constantly updated, modified and enhanced in order to make molecular spectroscopy data readily available to the astronomical community. Splatalogue is fully integrated into the ALMA Observing Tool, the ALMA data reduction and analysis package (CASA) and several enhanced tools being developed through the ALMA development program including the next generation CASA viewer (CARTA) and the ALMA Data Mining Toolkit (ADMIT). In anticipation for ALMA full science operations, a number of improvements have taken place over the past year to the Splatalogue database including, but not limited too, additions to Splatalogue from the JPL and CDMS line lists, improvements and reconciliation of the Lovas/NIST Catalog assigning NRAO recommended rest frequencies to every astronomically detected transition, including recent astronomical surveys to the list of transitions detected in space and finally, improved search and display features as requested by the astronomical community. Splatalogue is planning for the next 10 years of development and welcomes any and all contributions to improving the data integrity and availability to the scientific community.

  6. Rice SNP-seek database update: new SNPs, indels, and queries

    Science.gov (United States)

    Mansueto, Locedie; Fuentes, Roven Rommel; Borja, Frances Nikki; Detras, Jeffery; Abriol-Santos, Juan Miguel; Chebotarov, Dmytro; Sanciangco, Millicent; Palis, Kevin; Copetti, Dario; Poliakov, Alexandre; Dubchak, Inna; Solovyev, Victor; Wing, Rod A.; Hamilton, Ruaraidh Sackville; Mauleon, Ramil; McNally, Kenneth L.; Alexandrov, Nickolai

    2017-01-01

    We describe updates to the Rice SNP-Seek Database since its first release. We ran a new SNP-calling pipeline followed by filtering that resulted in complete, base, filtered and core SNP datasets. Besides the Nipponbare reference genome, the pipeline was run on genome assemblies of IR 64, 93-11, DJ 123 and Kasalath. New genotype query and display features are added for reference assemblies, SNP datasets and indels. JBrowse now displays BAM, VCF and other annotation tracks, the additional genome assemblies and an embedded VISTA genome comparison viewer. Middleware is redesigned for improved performance by using a hybrid of HDF5 and RDMS for genotype storage. Query modules for genotypes, varieties and genes are improved to handle various constraints. An integrated list manager allows the user to pass query parameters for further analysis. The SNP Annotator adds traits, ontology terms, effects and interactions to markers in a list. Web-service calls were implemented to access most data. These features enable seamless querying of SNP-Seek across various biological entities, a step toward semi-automated gene-trait association discovery. URL: http://snp-seek.irri.org. PMID:27899667

  7. A Multi-Index Integrated Change detection method for updating the National Land Cover Database

    Science.gov (United States)

    Jin, Suming; Yang, Limin; Xian, George Z.; Danielson, Patrick; Homer, Collin G.

    2010-01-01

    Land cover change is typically captured by comparing two or more dates of imagery and associating spectral change with true thematic change. A new change detection method, Multi-Index Integrated Change (MIIC), has been developed to capture a full range of land cover disturbance patterns for updating the National Land Cover Database (NLCD). Specific indices typically specialize in identifying only certain types of disturbances; for example, the Normalized Burn Ratio (NBR) has been widely used for monitoring fire disturbance. Recognizing the potential complementary nature of multiple indices, we integrated four indices into one model to more accurately detect true change between two NLCD time periods. The four indices are NBR, Normalized Difference Vegetation Index (NDVI), Change Vector (CV), and a newly developed index called the Relative Change Vector (RCV). The model is designed to provide both change location and change direction (e.g. biomass increase or biomass decrease). The integrated change model has been tested on five image pairs from different regions exhibiting a variety of disturbance types. Compared with a simple change vector method, MIIC can better capture the desired change without introducing additional commission errors. The model is particularly accurate at detecting forest disturbances, such as forest harvest, forest fire, and forest regeneration. Agreement between the initial change map areas derived from MIIC and the retained final land cover type change areas will be showcased from the pilot test sites.

  8. 76 FR 64859 - Pilot Loading of Navigation and Terrain Awareness Database Updates

    Science.gov (United States)

    2011-10-19

    .... The other was the Control Display Unit (CDU), which was installed in the cockpit. Updating the more... occurring via display of the update's revision number on the CDU. III. Discussion of the Proposal The...

  9. EVALUATING EFFECTIVENESS OF MOBILE BROWSER SECURITY WARNINGS

    Directory of Open Access Journals (Sweden)

    Ronak Shah

    2016-09-01

    Full Text Available This work precisely evaluates whether browser security warnings are as ineffective as proposed by popular sentiments and past writings. This research used different kinds of Android mobile browsers as well as desktop browsers to evaluate security warnings. Security experts and developers should give emphasis on making a user aware of security warnings and should not neglect aim of communicating this to users. Security experts and system architects should emphasis the goal of communicating security information to end users. In most of the browsers, security warnings are not emphasized, and browsers simply do not show warnings, or there are a number of ways to hide those warnings of malicious sites. This work precisely finds that how inconsistent browsers really are in prompting security warnings. In particular, majority of the modern mobile web browsers are vulnerable to these security threats. We find inconsistency in SSL warnings among web browsers. Based on this work, we make recommendations for warning designers and researchers.

  10. A comprehensive change detection method for updating the National Land Cover Database to circa 2011

    Science.gov (United States)

    Jin, Suming; Yang, Limin; Danielson, Patrick; Homer, Collin G.; Fry, Joyce; Xian, George

    2013-01-01

    The importance of characterizing, quantifying, and monitoring land cover, land use, and their changes has been widely recognized by global and environmental change studies. Since the early 1990s, three U.S. National Land Cover Database (NLCD) products (circa 1992, 2001, and 2006) have been released as free downloads for users. The NLCD 2006 also provides land cover change products between 2001 and 2006. To continue providing updated national land cover and change datasets, a new initiative in developing NLCD 2011 is currently underway. We present a new Comprehensive Change Detection Method (CCDM) designed as a key component for the development of NLCD 2011 and the research results from two exemplar studies. The CCDM integrates spectral-based change detection algorithms including a Multi-Index Integrated Change Analysis (MIICA) model and a novel change model called Zone, which extracts change information from two Landsat image pairs. The MIICA model is the core module of the change detection strategy and uses four spectral indices (CV, RCVMAX, dNBR, and dNDVI) to obtain the changes that occurred between two image dates. The CCDM also includes a knowledge-based system, which uses critical information on historical and current land cover conditions and trends and the likelihood of land cover change, to combine the changes from MIICA and Zone. For NLCD 2011, the improved and enhanced change products obtained from the CCDM provide critical information on location, magnitude, and direction of potential change areas and serve as a basis for further characterizing land cover changes for the nation. An accuracy assessment from the two study areas show 100% agreement between CCDM mapped no-change class with reference dataset, and 18% and 82% disagreement for the change class for WRS path/row p22r39 and p33r33, respectively. The strength of the CCDM is that the method is simple, easy to operate, widely applicable, and capable of capturing a variety of natural and

  11. CoryneRegNet 6.0--Updated database content, new analysis methods and novel features focusing on community demands.

    Science.gov (United States)

    Pauling, Josch; Röttger, Richard; Tauch, Andreas; Azevedo, Vasco; Baumbach, Jan

    2012-01-01

    Post-genomic analysis techniques such as next-generation sequencing have produced vast amounts of data about micro organisms including genetic sequences, their functional annotations and gene regulatory interactions. The latter are genetic mechanisms that control a cell's characteristics, for instance, pathogenicity as well as survival and reproduction strategies. CoryneRegNet is the reference database and analysis platform for corynebacterial gene regulatory networks. In this article we introduce the updated version 6.0 of CoryneRegNet and describe the updated database content which includes, 6352 corynebacterial regulatory interactions compared with 4928 interactions in release 5.0 and 3235 regulations in release 4.0, respectively. We also demonstrate how we support the community by integrating analysis and visualization features for transiently imported custom data, such as gene regulatory interactions. Furthermore, with release 6.0, we provide easy-to-use functions that allow the user to submit data for persistent storage with the CoryneRegNet database. Thus, it offers important options to its users in terms of community demands. CoryneRegNet is publicly available at http://www.coryneregnet.de.

  12. 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...

  13. The Pancreatic Islet Regulome Browser

    Science.gov (United States)

    Mularoni, Loris; Ramos-Rodríguez, Mireia; Pasquali, Lorenzo

    2017-01-01

    The pancreatic islet is a highly specialized tissue embedded in the exocrine pancreas whose primary function is that of controlling glucose homeostasis. Thus, understanding the transcriptional control of islet-cell may help to puzzle out the pathogenesis of glucose metabolism disorders. Integrative computational analyses of transcriptomic and epigenomic data allows predicting genomic coordinates of putative regulatory elements across the genome and, decipher tissue-specific functions of the non-coding genome. We herein present the Islet Regulome Browser, a tool that allows fast access and exploration of pancreatic islet epigenomic and transcriptomic data produced by different labs worldwide. The Islet Regulome Browser is now accessible on the internet or may be installed locally. It allows uploading custom tracks as well as providing interactive access to a wealth of information including Genome-Wide Association Studies (GWAS) variants, different classes of regulatory elements, together with enhancer clusters, stretch-enhancers and transcription factor binding sites in pancreatic progenitors and adult human pancreatic islets. Integration and visualization of such data may allow a deeper understanding of the regulatory networks driving tissue-specific transcription and guide the identification of regulatory variants. We believe that such tool will facilitate the access to pancreatic islet public genomic datasets providing a major boost to functional genomics studies in glucose metabolism related traits including diabetes. PMID:28261261

  14. An Update on the CHILDES/BIB (formerly ISU/CHILDES) Database.

    Science.gov (United States)

    Higginson, Roy

    1990-01-01

    Describes the CHILDES/BIB electronic bibliographic database, its contents, and its relationship to the CHILDES database. CHILDES is a depository of child language corpora and is the publisher of CHAT (a transcription manual) and CLAN (an electronic package for child language research). (GLR)

  15. Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data.

    Science.gov (United States)

    Kibbe, Warren A; Arze, Cesar; Felix, Victor; Mitraka, Elvira; Bolton, Evan; Fu, Gang; Mungall, Christopher J; Binder, Janos X; Malone, James; Vasant, Drashtti; Parkinson, Helen; Schriml, Lynn M

    2015-01-01

    The current version of the Human Disease Ontology (DO) (http://www.disease-ontology.org) database expands the utility of the ontology for the examination and comparison of genetic variation, phenotype, protein, drug and epitope data through the lens of human disease. DO is a biomedical resource of standardized common and rare disease concepts with stable identifiers organized by disease etiology. The content of DO has had 192 revisions since 2012, including the addition of 760 terms. Thirty-two percent of all terms now include definitions. DO has expanded the number and diversity of research communities and community members by 50+ during the past two years. These community members actively submit term requests, coordinate biomedical resource disease representation and provide expert curation guidance. Since the DO 2012 NAR paper, there have been hundreds of term requests and a steady increase in the number of DO listserv members, twitter followers and DO website usage. DO is moving to a multi-editor model utilizing Protégé to curate DO in web ontology language. This will enable closer collaboration with the Human Phenotype Ontology, EBI's Ontology Working Group, Mouse Genome Informatics and the Monarch Initiative among others, and enhance DO's current asserted view and multiple inferred views through reasoning.

  16. DiseaseMeth version 2.0: a major expansion and update of the human disease methylation database

    Science.gov (United States)

    Xiong, Yichun; Wei, Yanjun; Gu, Yue; Zhang, Shumei; Lyu, Jie; Zhang, Bin; Chen, Chuangeng; Zhu, Jiang; Wang, Yihan; Liu, Hongbo; Zhang, Yan

    2017-01-01

    The human disease methylation database (DiseaseMeth, http://bioinfo.hrbmu.edu.cn/diseasemeth/) is an interactive database that aims to present the most complete collection and annotation of aberrant DNA methylation in human diseases, especially various cancers. Recently, the high-throughput microarray and sequencing technologies have promoted the production of methylome data that contain comprehensive knowledge of human diseases. In this DiseaseMeth update, we have increased the number of samples from 3610 to 32 701, the number of diseases from 72 to 88 and the disease–gene associations from 216 201 to 679 602. DiseaseMeth version 2.0 provides an expanded comprehensive list of disease–gene associations based on manual curation from experimental studies and computational identification from high-throughput methylome data. Besides the data expansion, we also updated the search engine and visualization tools. In particular, we enhanced the differential analysis tools, which now enable online automated identification of DNA methylation abnormalities in human disease in a case-control or disease–disease manner. To facilitate further mining of the disease methylome, three new web tools were developed for cluster analysis, functional annotation and survival analysis. DiseaseMeth version 2.0 should be a useful resource platform for further understanding the molecular mechanisms of human diseases. PMID:27899673

  17. CNA’s Integrated Ship Database: First Quarter CY 2013 Update

    Science.gov (United States)

    2014-10-01

    in the U.S. Sixth Fleet area of responsibility. (U.S. Navy photo by Paul Farley/Released). (http://www.navy.mil/management/photodb/photos/130516-N...for calendar years 2012 and 2013, a link to the Database Archive , and a list of our data source organizations and respective points of contact...Figure 3 shows the top portion of the Database Archive web page. Here you will find all our database products between September 2005 and December 2011. 2

  18. 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.

  19. Web browser accessibility using open source software

    NARCIS (Netherlands)

    Obrenovic, Z.; Ossenbruggen, J.R. van

    2007-01-01

    A Web browser provides a uniform user interface to different types of information. Making this interface universally accessible and more interactive is a long term goal still far from being achieved. Universally accessible browsers require novel interaction modalities and additional functionalities,

  20. The Navigational Power of Web Browsers

    NARCIS (Netherlands)

    Bielecki, M.; Hidders, J.; Paredaens, J.; Spielmann, M.; Tyszkiewicz, J.; Van den Bussche, J.

    2010-01-01

    We investigate the computational capabilities of Web browsers, when equipped with a standard finite automaton. We observe that Web browsers are Turingcomplete. We introduce the notion of a navigational problem, and investigate the complexity of solving Web queries and navigational problems by Web br

  1. Line-mode browser development days

    CERN Multimedia

    Anna Pantelia

    2013-01-01

    Twelve talented web developers have travelled to CERN from all over the world to recreate a piece of web history: the line-mode browser. See the line-mode browser simulator that they created here. Read more about the birth of the web here.

  2. dbDEMC 2.0: updated database of differentially expressed miRNAs in human cancers

    Science.gov (United States)

    Yang, Zhen; Wu, Liangcai; Wang, Anqiang; Tang, Wei; Zhao, Yi; Zhao, Haitao; Teschendorff, Andrew E.

    2017-01-01

    MicroRNAs (miRNAs) are often deregulated in cancer and are thought to play an important role in cancer development. Large amount of differentially expressed miRNAs have been identified in various cancers by using high-throughput methods. It is therefore quite important to make a comprehensive collection of these miRNAs and to decipher their roles in oncogenesis and tumor progression. In 2010, we presented the first release of dbDEMC, representing a database for collection of differentially expressed miRNAs in human cancers obtained from microarray data. Here we describe an update of the database. dbDEMC 2.0 documents 209 expression profiling data sets across 36 cancer types and 73 subtypes, and a total of 2224 differentially expressed miRNAs were identified. An easy-to-use web interface was constructed that allows users to make a quick search of the differentially expressed miRNAs in certain cancer types. In addition, a new function of ‘meta-profiling’ was added to view differential expression events according to user-defined miRNAs and cancer types. We expect this database to continue to serve as a valuable source for cancer investigation and potential clinical application related to miRNAs. dbDEMC 2.0 is freely available at http://www.picb.ac.cn/dbDEMC. PMID:27899556

  3. NCBI GEO: mining tens of millions of expression profiles--database and tools update.

    Science.gov (United States)

    Barrett, Tanya; Troup, Dennis B; Wilhite, Stephen E; Ledoux, Pierre; Rudnev, Dmitry; Evangelista, Carlos; Kim, Irene F; Soboleva, Alexandra; Tomashevsky, Maxim; Edgar, Ron

    2007-01-01

    The Gene Expression Omnibus (GEO) repository at the National Center for Biotechnology Information (NCBI) archives and freely disseminates microarray and other forms of high-throughput data generated by the scientific community. The database has a minimum information about a microarray experiment (MIAME)-compliant infrastructure that captures fully annotated raw and processed data. Several data deposit options and formats are supported, including web forms, spreadsheets, XML and Simple Omnibus Format in Text (SOFT). In addition to data storage, a collection of user-friendly web-based interfaces and applications are available to help users effectively explore, visualize and download the thousands of experiments and tens of millions of gene expression patterns stored in GEO. This paper provides a summary of the GEO database structure and user facilities, and describes recent enhancements to database design, performance, submission format options, data query and retrieval utilities. GEO is accessible at http://www.ncbi.nlm.nih.gov/geo/

  4. Nuclear insertions of mitochondrial origin: Database updating and usefulness in cancer studies.

    Science.gov (United States)

    Ramos, Amanda; Barbena, Elena; Mateiu, Ligia; del Mar González, María; Mairal, Quim; Lima, Manuela; Montiel, Rafael; Aluja, Maria Pilar; Santos, Cristina

    2011-11-01

    Nuclear insertions of mitochondrial origin (NUMTs) can be useful tools in evolution and population studies. However, due to their similarity to mitochondrial DNA (mtDNA), NUMTs may also be a source of contamination in mtDNA studies. The main goal of this work is to present a database of NUMTs, based on the latest version of the human genome-GRCh37 draft. A total of 755 insertions were identified. There are 33 paralogous sequences with over 80% sequence similarity and of a greater length than 500bp. The non-identical positions between paralogous sequences are listed for the first time. As an application example, the described database is used to evaluate the impact of NUMT contamination in cancer studies. The evaluation reveals that 220 positions from 256 with zero hits in the current mtDNA phylogeny could in fact be traced to one or more nuclear insertions of mtDNA. This is due to they are located in non-identical positions between mtDNA and nuclear DNA (nDNA). After in silico primer validation of each revised cancer study, risk of co-amplification between mtDNA and nDNA was detected in some cases, whereas in others no risk of amplification was identified. This approach to cancer studies clearly proves the potential of our NUMT database as a valuable new tool to validate mtDNA mutations described in different contexts. Moreover, due to the amount of information provided for each nuclear insertion, this database should play an important role in designing evolutionary, phylogenetic and epidemiological studies.

  5. The Society of Thoracic Surgeons Congenital Heart Surgery Database: 2016 Update on Research.

    Science.gov (United States)

    Jacobs, Marshall L; Jacobs, Jeffrey P; Pasquali, Sara K; Hill, Kevin D; Hornik, Christoph; O'Brien, Sean M; Shahian, David M; Habib, Robert H; Edwards, Fred H

    2016-09-01

    The Society of Thoracic Surgeons Congenital Heart Surgery Database (STS CHSD) is the largest congenital and pediatric cardiac surgical clinical data registry in the world. With more than 400,000 total operations from nearly all centers performing pediatric and congenital heart operations in North America, the STS CHSD is an unparalleled platform for clinical investigation, outcomes research, and quality improvement activities in this subspecialty. In 2015, several major original publications reported analyses of data in the CHSD pertaining to specific diagnostic and procedural groups, age-defined cohorts, or the entire population of patients in the database. Additional publications reported the most recent development, evaluation, and application of metrics for quality measurement and reporting of pediatric and congenital heart operation outcomes. This use of the STS CHSD for outcomes research and for quality measurement continues to expand as database participation and the available wealth of data in it continue to grow. This article reviews outcomes research and quality improvement articles published in 2015 based on STS CHSD data.

  6. Red blood cell PK deficiency: An update of PK-LR gene mutation database.

    Science.gov (United States)

    Canu, Giulia; De Bonis, Maria; Minucci, Angelo; Capoluongo, Ettore

    2016-03-01

    Pyruvate kinase (PK) deficiency is known as being the most common cause of chronic nonspherocytic hemolytic anemia (CNSHA). Clinical PK deficiency is transmitted as an autosomal recessive trait, that can segregate neither in homozygous or in a compound heterozygous modality, respectively. Two PK genes are present in mammals: the pyruvate kinase liver and red blood cells (PK-LR) and the pyruvate kinase muscle (PK-M), of which only the first encodes for the isoenzymes normally expressed in the red blood cells (R-type) and in the liver (L-type). Several reports have been published describing a large variety of genetic defects in PK-LR gene associated to CNSHA. Herein, we present a review of about 250 published mutations and six polymorphisms in PK-LR gene with the corresponding clinical and molecular data. We consulted the PubMed website for searching mutations and papers, along with two main databases: the Leiden Open Variation Database (LOVD, https://grenada.lumc.nl/LOVD2/mendelian_genes/home.php?select_db=PKLR) and Human Gene Mutation Database (HGMD, http://www.hgmd.cf.ac.uk/ac/gene.php?gene=PKLR) for selecting, reviewing and listing the annotated PK-LR gene mutations present in literature. This paper is aimed to provide useful information to clinicians and laboratory professionals regarding overall reported PK-LR gene mutations, also giving the opportunity to harmonize data regarding PK-deficient individuals.

  7. Database Description - DGBY | 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 ...EF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Database Description - DGBY | LSDB Archive ...

  8. WebPlus: lxplus in your browser

    CERN Document Server

    CERN. Geneva

    2017-01-01

    This talk will cover the possibility of offering a lxplus like service directly on the browser. How we could rely on containers and schedulers to maintain long lived sessions, and how to offer integration with common CERN services.

  9. Research Update: The materials genome initiative: Data sharing and the impact of collaborative ab initio databases

    Science.gov (United States)

    Jain, Anubhav; Persson, Kristin A.; Ceder, Gerbrand

    2016-05-01

    Materials innovations enable new technological capabilities and drive major societal advancements but have historically required long and costly development cycles. The Materials Genome Initiative (MGI) aims to greatly reduce this time and cost. In this paper, we focus on data reuse in the MGI and, in particular, discuss the impact of three different computational databases based on density functional theory methods to the research community. We also discuss and provide recommendations on technical aspects of data reuse, outline remaining fundamental challenges, and present an outlook on the future of MGI's vision of data sharing.

  10. Security Survey of Internet Browsers Data Managers

    CERN Document Server

    Boja, Catalin

    2011-01-01

    The paper analyses current versions of top three used Internet browsers and compare their security levels to a research done in 2006. The security is measured by analyzing how user data is stored. Data recorded during different browsing sessions and by different password management functions it is considered sensitive data. The paper describes how the browser protects the sensitive data and how an attacker or a forensic analyst can access it.

  11. Security Survey of Internet Browsers Data Managers

    Directory of Open Access Journals (Sweden)

    Catalin Boja

    2011-09-01

    Full Text Available The paper analyses current versions of top three used Internet browsers and compare their security levels to a research done in 2006. The security is measured by analyzing how user data is stored. Data recorded during different browsing sessions and by different password management functions it is considered sensitive data. The paper describes how the browser protects the sensitive data and how an attacker or a forensic analyst can access it.

  12. Chinese users’ preference for web browser icons.

    OpenAIRE

    Shen, Siu-Tsen; Prior, Stephen D.; Chen, Kuen-Meau; Fang, Te-Hua

    2009-01-01

    This paper compares the perspicacity, appropriateness and preference of web browser icons from leading software providers with those of a culture-specific design. The history and future direction of web browsers is outlined, together with the implications for the future growth of Chinese internet users. China, with its rapidly expanding young netizens has now overtaken the USA in terms of the number of internet users (253 million) and we predict it will reach saturation (≈70% internet penetra...

  13. Loading Arbitrary Knowledge Bases in Matrix Browser

    OpenAIRE

    2009-01-01

    This paper describes the work done on Matrix Browser, which is a recently developed graphical user interface to explore and navigate complex networked information spaces. This approach presents a new way of navigating information nets in windows explorer like widget. The problem on hand was how to export arbitrary knowledge bases in Matrix Browser. This was achieved by identifying the relationships present in knowledge bases and then by forming the hierarchies from this data and these hierarc...

  14. LincSNP 2.0: an updated database for linking disease-associated SNPs to human long non-coding RNAs and their TFBSs

    Science.gov (United States)

    Ning, Shangwei; Yue, Ming; Wang, Peng; Liu, Yue; Zhi, Hui; Zhang, Yan; Zhang, Jizhou; Gao, Yue; Guo, Maoni; Zhou, Dianshuang; Li, Xin; Li, Xia

    2017-01-01

    We describe LincSNP 2.0 (http://bioinfo.hrbmu.edu.cn/LincSNP), an updated database that is used specifically to store and annotate disease-associated single nucleotide polymorphisms (SNPs) in human long non-coding RNAs (lncRNAs) and their transcription factor binding sites (TFBSs). In LincSNP 2.0, we have updated the database with more data and several new features, including (i) expanding disease-associated SNPs in human lncRNAs; (ii) identifying disease-associated SNPs in lncRNA TFBSs; (iii) updating LD-SNPs from the 1000 Genomes Project; and (iv) collecting more experimentally supported SNP-lncRNA-disease associations. Furthermore, we developed three flexible online tools to retrieve and analyze the data. Linc-Mart is a convenient way for users to customize their own data. Linc-Browse is a tool for all data visualization. Linc-Score predicts the associations between lncRNA and disease. In addition, we provided users a newly designed, user-friendly interface to search and download all the data in LincSNP 2.0 and we also provided an interface to submit novel data into the database. LincSNP 2.0 is a continually updated database and will serve as an important resource for investigating the functions and mechanisms of lncRNAs in human diseases. PMID:27924020

  15. PlnTFDB: updated content and new features of the plant transcription factor database

    Science.gov (United States)

    Pérez-Rodríguez, Paulino; Riaño-Pachón, Diego Mauricio; Corrêa, Luiz Gustavo Guedes; Rensing, Stefan A.; Kersten, Birgit; Mueller-Roeber, Bernd

    2010-01-01

    The Plant Transcription Factor Database (PlnTFDB; http://plntfdb.bio.uni-potsdam.de/v3.0/) is an integrative database that provides putatively complete sets of transcription factors (TFs) and other transcriptional regulators (TRs) in plant species (sensu lato) whose genomes have been completely sequenced and annotated. The complete sets of 84 families of TFs and TRs from 19 species ranging from unicellular red and green algae to angiosperms are included in PlnTFDB, representing >1.6 billion years of evolution of gene regulatory networks. For each gene family, a basic description is provided that is complemented by literature references, and multiple sequence alignments of protein domains. TF or TR gene entries include information of expressed sequence tags, 3D protein structures of homologous proteins, domain architecture and cross-links to other computational resources online. Moreover, the different species in PlnTFDB are linked to each other by means of orthologous genes facilitating cross-species comparisons. PMID:19858103

  16. PubChem BioAssay: 2017 update

    Science.gov (United States)

    Wang, Yanli; Bryant, Stephen H.; Cheng, Tiejun; Wang, Jiyao; Gindulyte, Asta; Shoemaker, Benjamin A.; Thiessen, Paul A.; He, Siqian; Zhang, Jian

    2017-01-01

    PubChem's BioAssay database (https://pubchem.ncbi.nlm.nih.gov) has served as a public repository for small-molecule and RNAi screening data since 2004 providing open access of its data content to the community. PubChem accepts data submission from worldwide researchers at academia, industry and government agencies. PubChem also collaborates with other chemical biology database stakeholders with data exchange. With over a decade's development effort, it becomes an important information resource supporting drug discovery and chemical biology research. To facilitate data discovery, PubChem is integrated with all other databases at NCBI. In this work, we provide an update for the PubChem BioAssay database describing several recent development including added sources of research data, redesigned BioAssay record page, new BioAssay classification browser and new features in the Upload system facilitating data sharing. PMID:27899599

  17. ABrowse - a customizable next-generation genome browser framework

    Directory of Open Access Journals (Sweden)

    Kong Lei

    2012-01-01

    Full Text Available Abstract Background With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Results Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. Conclusions ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for

  18. Measured energy savings and economics of retrofitting existing single-family homes: An update of the BECA-B database

    Energy Technology Data Exchange (ETDEWEB)

    Cohen, S.D.; Goldman, C.A.; Harris, J.P.

    1991-02-01

    The energy bill for US single-family households was over $77 billion in 1987 (excluding auto fuel purchases), accounting for approximately 20% of national energy expenditures. Large sums are spent on residential retrofits by individual homeowners, government agencies, and utilities. As of late 1987, over 21 million households indicated that they had added at least one energy-saving measure in the previous two years, while a recent Electric Power Research Institute (EPRI) study estimated that nearly 15 million residential customers have participated in some kind of demand-side management (DSM) program. Given the level of continuing investments in residential energy efficiency, accurate estimates of savings from various conservation measures are increasingly necessary, especially as new technologies become more sophisticated and incremental efficiency gains more difficult to achieve. This report provides a comparative analysis of measured data on the performance and cost-effectiveness of energy-saving measures in existing single-family homes, based on information in the Buildings Energy-Use Compilation and Analysis (BECA) data base. The initial BECA report on measured data for single-family retrofits was completed seven years ago. In updating the single-family database, we have added 135 data points, representing over 33,000 houses, to the original database of 145 retrofit projects. The report is organized in two volumes. Volume 1 provides a summary of energy savings and costs of individual retrofit measures and strategies and results from federal/state low-income and utility weatherization programs. we also discuss measurement issues, predicted versus actual savings, trends in single-family retrofit programs, and implications for the next generation'' of cost-effective single-family retrofits. Volume 2 contains a written summary of each retrofit project and complete data tables. 87 refs., 20 figs., 16 tabs.

  19. Update of the Pompe disease mutation database with 107 sequence variants and a format for severity rating.

    Science.gov (United States)

    Kroos, Marian; Pomponio, Robert J; van Vliet, Laura; Palmer, Rachel E; Phipps, Michael; Van der Helm, Robert; Halley, Dicky; Reuser, Arnold

    2008-06-01

    Pompe disease was named after the Dutch pathologist Dr JC Pompe who reported about a deceased infant with idiopathic hypertrophy of the heart. The clinical findings were failure to thrive, generalized muscle weakness and cardio-respiratory failure. The key pathologic finding was massive storage of glycogen in heart, skeletal muscle and many other tissues. The disease was classified as glycogen storage disease type II and decades later shown to be a lysosomal disorder caused by acid alpha-glucosidase deficiency. The clinical spectrum of Pompe disease appeared much broader than originally recognized. Adults with the same enzyme deficiency, alternatively named acid maltase deficiency, were reported to have slowly progressive skeletal muscle weakness and respiratory problems, but no cardiac involvement. The clinical heterogeneity is largely explained by the kind and severity of mutations in the acid alpha-glucosidase gene (GAA), but secondary factors, as yet unknown, have a substantial impact. The Pompe disease mutation database aims to list all GAA sequence variations and describe their effect. This update with 107 sequence variations (95 being novel) brings the number of published variations to 289, the number of non-pathogenic mutations to 67 and the number of proven pathogenic mutations to 197. Further, this article introduces a tool to rate the various mutations by severity, which will improve understanding of the genotype-phenotype correlation and facilitate the diagnosis and prognosis in Pompe disease.

  20. Controlling EPICS from a web browser.

    Energy Technology Data Exchange (ETDEWEB)

    Evans, K., Jr.

    1999-04-13

    An alternative to using a large graphical display manager like MEDM [1,2] to interface to a control system, is to use individual control objects, such as text boxes, meters, etc., running in a browser. This paper presents three implementations of this concept, one using ActiveX controls, one with Java applets, and another with Microsoft Agent. The ActiveX controls have performance nearing that of MEDM, but they only work on Windows platforms. The Java applets require a server to get around Web security restrictions and are not as fast, but they have the advantage of working on most platforms and with both of the leading Web browsers. The agent works on Windows platforms with and without a browser and allows voice recognition and speech synthesis, making it somewhat more innovative than MEDM.

  1. Browser-Based Covert Data Exfiltration

    CERN Document Server

    Born, Kenton

    2010-01-01

    Current best practices heavily control user permissions on network systems. This effectively mitigates many insider threats regarding the collection and exfiltration of data. Many methods of covert communication involve crafting custom packets, typically requiring both the necessary software and elevated privileges on the system. By exploiting the functionality of a browser, covert channels for data exfiltration may be created without additional software or user privileges. This paper explores novel methods of using a browser's JavaScript engine to exfiltrate documents over the Domain Name System (DNS) protocol without sending less covert Hypertext Transfer Protocol (HTTP) requests.

  2. A Lead Provided by Bookmarks - Intelligent Browsers

    Directory of Open Access Journals (Sweden)

    Dan Balanescu

    2015-05-01

    Full Text Available Browsers are applications that allow Internet access. A defining characteristic is their unidirectionality: Navigator-> Internet. The purpose of this article is to support the idea of Intelligent Browsers that is defined by bidirectional: Navigator-> Internet and Internet-> Navigator. The fundamental idea is that the Internet contains huge resources of knowledge, but they are “passive”. The purpose of this article is to propose the “activation” of this knowledge so that they, through “Intelligent Browsers”, to become from Sitting Ducks to Active Mentors. Following this idea, the present article proposes changes to Bookmarks function, from the current status of Favorites to Recommendations. The article presents an analysis of the utility of this function (by presenting a research of web browsing behaviors and in particular finds that the significance of this utility has decreased lately (to the point of becoming almost useless, as will be shown, in terms data-information-knowledge. Finally, it presents the idea of a project which aims to be an applied approach that anticipates the findings of this study and the concept of Intelligent Browsers (or Active Browsers required in the context of the Big Data concept.

  3. Plugin free remote visualization in the browser

    Science.gov (United States)

    Tamm, Georg; Slusallek, Philipp

    2015-01-01

    Today, users access information and rich media from anywhere using the web browser on their desktop computers, tablets or smartphones. But the web evolves beyond media delivery. Interactive graphics applications like visualization or gaming become feasible as browsers advance in the functionality they provide. However, to deliver large-scale visualization to thin clients like mobile devices, a dedicated server component is necessary. Ideally, the client runs directly within the browser the user is accustomed to, requiring no installation of a plugin or native application. In this paper, we present the state-of-the-art of technologies which enable plugin free remote rendering in the browser. Further, we describe a remote visualization system unifying these technologies. The system transfers rendering results to the client as images or as a video stream. We utilize the upcoming World Wide Web Consortium (W3C) conform Web Real-Time Communication (WebRTC) standard, and the Native Client (NaCl) technology built into Chrome, to deliver video with low latency.

  4. CauloBrowser: A systems biology resource for Caulobacter crescentus

    Science.gov (United States)

    Lasker, Keren; Schrader, Jared M.; Men, Yifei; Marshik, Tyler; Dill, David L.; McAdams, Harley H.; Shapiro, Lucy

    2016-01-01

    Caulobacter crescentus is a premier model organism for studying the molecular basis of cellular asymmetry. The Caulobacter community has generated a wealth of high-throughput spatiotemporal databases including data from gene expression profiling experiments (microarrays, RNA-seq, ChIP-seq, ribosome profiling, LC-ms proteomics), gene essentiality studies (Tn-seq), genome wide protein localization studies, and global chromosome methylation analyses (SMRT sequencing). A major challenge involves the integration of these diverse data sets into one comprehensive community resource. To address this need, we have generated CauloBrowser (www.caulobrowser.org), an online resource for Caulobacter studies. This site provides a user-friendly interface for quickly searching genes of interest and downloading genome-wide results. Search results about individual genes are displayed as tables, graphs of time resolved expression profiles, and schematics of protein localization throughout the cell cycle. In addition, the site provides a genome viewer that enables customizable visualization of all published high-throughput genomic data. The depth and diversity of data sets collected by the Caulobacter community makes CauloBrowser a unique and valuable systems biology resource. PMID:26476443

  5. CauloBrowser: A systems biology resource for Caulobacter crescentus.

    Science.gov (United States)

    Lasker, Keren; Schrader, Jared M; Men, Yifei; Marshik, Tyler; Dill, David L; McAdams, Harley H; Shapiro, Lucy

    2016-01-04

    Caulobacter crescentus is a premier model organism for studying the molecular basis of cellular asymmetry. The Caulobacter community has generated a wealth of high-throughput spatiotemporal databases including data from gene expression profiling experiments (microarrays, RNA-seq, ChIP-seq, ribosome profiling, LC-ms proteomics), gene essentiality studies (Tn-seq), genome wide protein localization studies, and global chromosome methylation analyses (SMRT sequencing). A major challenge involves the integration of these diverse data sets into one comprehensive community resource. To address this need, we have generated CauloBrowser (www.caulobrowser.org), an online resource for Caulobacter studies. This site provides a user-friendly interface for quickly searching genes of interest and downloading genome-wide results. Search results about individual genes are displayed as tables, graphs of time resolved expression profiles, and schematics of protein localization throughout the cell cycle. In addition, the site provides a genome viewer that enables customizable visualization of all published high-throughput genomic data. The depth and diversity of data sets collected by the Caulobacter community makes CauloBrowser a unique and valuable systems biology resource.

  6. Genome Maps, a new generation genome browser.

    Science.gov (United States)

    Medina, Ignacio; Salavert, Francisco; Sanchez, Rubén; de Maria, Alejandro; Alonso, Roberto; Escobar, Pablo; Bleda, Marta; Dopazo, Joaquín

    2013-07-01

    Genome browsers have gained importance as more genomes and related genomic information become available. However, the increase of information brought about by new generation sequencing technologies is, at the same time, causing a subtle but continuous decrease in the efficiency of conventional genome browsers. Here, we present Genome Maps, a genome browser that implements an innovative model of data transfer and management. The program uses highly efficient technologies from the new HTML5 standard, such as scalable vector graphics, that optimize workloads at both server and client sides and ensure future scalability. Thus, data management and representation are entirely carried out by the browser, without the need of any Java Applet, Flash or other plug-in technology installation. Relevant biological data on genes, transcripts, exons, regulatory features, single-nucleotide polymorphisms, karyotype and so forth, are imported from web services and are available as tracks. In addition, several DAS servers are already included in Genome Maps. As a novelty, this web-based genome browser allows the local upload of huge genomic data files (e.g. VCF or BAM) that can be dynamically visualized in real time at the client side, thus facilitating the management of medical data affected by privacy restrictions. Finally, Genome Maps can easily be integrated in any web application by including only a few lines of code. Genome Maps is an open source collaborative initiative available in the GitHub repository (https://github.com/compbio-bigdata-viz/genome-maps). Genome Maps is available at: http://www.genomemaps.org.

  7. Genome Maps, a new generation genome browser

    Science.gov (United States)

    Medina, Ignacio; Salavert, Francisco; Sanchez, Rubén; de Maria, Alejandro; Alonso, Roberto; Escobar, Pablo; Bleda, Marta; Dopazo, Joaquín

    2013-01-01

    Genome browsers have gained importance as more genomes and related genomic information become available. However, the increase of information brought about by new generation sequencing technologies is, at the same time, causing a subtle but continuous decrease in the efficiency of conventional genome browsers. Here, we present Genome Maps, a genome browser that implements an innovative model of data transfer and management. The program uses highly efficient technologies from the new HTML5 standard, such as scalable vector graphics, that optimize workloads at both server and client sides and ensure future scalability. Thus, data management and representation are entirely carried out by the browser, without the need of any Java Applet, Flash or other plug-in technology installation. Relevant biological data on genes, transcripts, exons, regulatory features, single-nucleotide polymorphisms, karyotype and so forth, are imported from web services and are available as tracks. In addition, several DAS servers are already included in Genome Maps. As a novelty, this web-based genome browser allows the local upload of huge genomic data files (e.g. VCF or BAM) that can be dynamically visualized in real time at the client side, thus facilitating the management of medical data affected by privacy restrictions. Finally, Genome Maps can easily be integrated in any web application by including only a few lines of code. Genome Maps is an open source collaborative initiative available in the GitHub repository (https://github.com/compbio-bigdata-viz/genome-maps). Genome Maps is available at: http://www.genomemaps.org. PMID:23748955

  8. Exploratory Visual Analytics of a Dynamically Built Network of Nodes in a WebGL-Enabled Browser

    Science.gov (United States)

    2014-01-01

    Approved for public release; distribution is unlimited. 13. SUPPLEMENTARY NOTES 14. ABSTRACT This report describes an extensible hypertext markup...analytics capability has been done in a WebGL-enabled browser. Gaming technology has been further strengthened by update of the hypertext markup language...Nodes 8 The following extensible hypertext markup language (XHTML) example builds a 26-node network. The code is

  9. Online Marketing Strategy for a browser games portal

    OpenAIRE

    Vinaixa Campos, Joan

    2008-01-01

    The Browser games industry: Introduction and description of browser games and browser games portals. Description of the main characteristics that define the browser games industry and its competitive environment. Analysis of all the factors that need to be considered in order to make a successful market entry. Online marketing techniques: Introduction and description to the main online marketing techniques that exist to market a product or service in internet: Search Engine Marketing...

  10. 78 FR 30226 - Accessibility Requirements for Internet Browsers

    Science.gov (United States)

    2013-05-22

    ...] Accessibility Requirements for Internet Browsers AGENCY: Federal Communications Commission. ACTION: Final rule... and Video Accessibility Act of 2010 (CVAA). Section 718 of the Act requires Internet browsers built..., the Commission also affirms that section 716 of the Act requires certain Internet browsers used...

  11. Zbrowse: an interactive GWAS results browser

    Directory of Open Access Journals (Sweden)

    Greg R. Ziegler

    2015-05-01

    Full Text Available The growing number of genotyped populations, the advent of high-throughput phenotyping techniques and the development of GWAS analysis software has rapidly accelerated the number of GWAS experimental results. Candidate gene discovery from these results files is often tedious, involving many manual steps searching for genes in windows around a significant SNP. This problem rapidly becomes more complex when an analyst wishes to compare multiple GWAS studies for pleiotropic or environment specific effects. To this end, we have developed a fast and intuitive interactive browser for the viewing of GWAS results with a focus on an ability to compare results across multiple traits or experiments. The software can easily be run on a desktop computer with software that bioinformaticians are likely already familiar with. Additionally, the software can be hosted or embedded on a server for easy access by anyone with a modern web browser.

  12. A collaborative framework for browser games development

    OpenAIRE

    Pena, Jorge

    2012-01-01

    Master in Open Source Software This dissertation describes a conceptual model and prototype for a collaborative framework for browser games development using open source and open content. There is an extensive literature review exploring several areas like game development, modding, open source software development, open content and creative commons. The most relevant ideas about game development and collaboration are then used in defining the conceptual model of the framewo...

  13. UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein–DNA interactions

    Science.gov (United States)

    Hume, Maxwell A.; Barrera, Luis A.; Gisselbrecht, Stephen S.; Bulyk, Martha L.

    2015-01-01

    The Universal PBM Resource for Oligonucleotide Binding Evaluation (UniPROBE) serves as a convenient source of information on published data generated using universal protein-binding microarray (PBM) technology, which provides in vitro data about the relative DNA-binding preferences of transcription factors for all possible sequence variants of a length k (‘k-mers’). The database displays important information about the proteins and displays their DNA-binding specificity data in terms of k-mers, position weight matrices and graphical sequence logos. This update to the database documents the growth of UniPROBE since the last update 4 years ago, and introduces a variety of new features and tools, including a new streamlined pipeline that facilitates data deposition by universal PBM data generators in the research community, a tool that generates putative nonbinding (i.e. negative control) DNA sequences for one or more proteins and novel motifs obtained by analyzing the PBM data using the BEEML-PBM algorithm for motif inference. The UniPROBE database is available at http://uniprobe.org. PMID:25378322

  14. Research on Browsers Recognition%浏览器识别研究

    Institute of Scientific and Technical Information of China (English)

    李周辉; 黄燕群; 唐屹

    2016-01-01

    three typical machine learning methods, in order to recognize the browsers. The experimental results show that the browsers can be recognized, and the recognition accuracy is as high as 100%. This means that the users must improve safety awareness, update the browser version, and install the latest patch to prevent system damages caused by the hackers using the original browsers vulnerabilities.

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

    Energy Technology Data Exchange (ETDEWEB)

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

    2014-03-01

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

  16. The UMD-APC database, a model of nation-wide knowledge base: update with data from 3,581 variations.

    Science.gov (United States)

    Grandval, Philippe; Blayau, Martine; Buisine, Marie-Pierre; Coulet, Florence; Maugard, Christine; Pinson, Stéphane; Remenieras, Audrey; Tinat, Julie; Uhrhammer, Nancy; Béroud, Christophe; Olschwang, Sylviane

    2014-05-01

    Familial adenomatous polyposis (FAP) is a rare autosomal-inherited disease that highly predisposes to colorectal cancer, characterized by a diffuse duodenal and colorectal polyposis associated with various extradigestive tumors and linked to germline mutations within the APC gene. A French consortium of laboratories involved in APC mutation screening has progressively improved the description of the variation spectrum, inferred functional significance of nontruncating variations, and delineated phenotypic characteristics of the disease. The current version of the UMD-APC database is described here. The total number of variations has risen to 5,453 representing 1,473 distinct variations. The published records initially registered into the database were extended with 3,581 germline variations found through genetic testing performed by the eight licensed laboratories belonging to the French APC network. Sixty six of 149 variations of previously unknown significance have now been classified as (likely) causal or neutral. The database is available on the Internet (http://www.umd.be/APC/) and updated twice per year according to the consensus rules of the network. The UMD-APC database is thus expected to facilitate functional classification of rare synonymous, nonsynonymous, and intronic mutations and consequently improve genetic counseling and medical care in FAP families.

  17. The Factor VIII Mutation Database on the World Wide Web: the haemophilia A mutation, search, test and resource site. HAMSTeRS update (version 3.0).

    Science.gov (United States)

    Kemball-Cook, G; Tuddenham, E G

    1997-01-01

    The HAMSTeRS WWW site was set up in 1996 in order to facilitate easy access to, and aid understanding of, the causes of haemophilia A at the molecular level; previously, the first and second text editions of the database have been published in Nucleic Acids Research. This report describes the facilities originally available at the site and the recent additions which we have made to increase its usefulness to clinicians, the molecular genetics community and structural biologists interested in factor VIII. The database (version 3.0) has been completely updated with easy submission of point mutations, deletions and insertions via e-mail of custom-designed forms. The searching of point mutations in the database has been made simpler and more robust, with a concomitantly expanded real-time bioinformatic analysis of the database. A methods section devoted to mutation detection has been added, highlighting issues such as choice of technique and PCR primer sequences. Finally, a FVIII structure section gives access to 3D VRML (Virtual Reality Modelling Language) files for any user-definable residue in a FVIII A domain homology model based on the crystal structure of human caeruloplasmin, together with secondary structural data and a sound+video animation of the model. It is intended that the general availability of this model will assist both in interpretation of causative mutations and selection of candidate residues forin vitromutagenesis. The HAMSTeRS URL is http://europium.mrc.rpms.ac.uk.

  18. Download - Trypanosomes Database | 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 ...earch and download Downlaod via FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  19. Browser Wars : Kampen om webbläsarmarknaden

    OpenAIRE

    Högström, Andreas; Pettersson, Emil

    2010-01-01

    The first browser war took place during the second half the 1990s, and Internet Explorer cameout as the winner over Netscape Navigator. Today a new browser war is being fought withmany competitors and the future is uncertain. The purpose of the thesis is to find out how theweb browser market has developed since the start of the previous conflict, and we ask ourselveshow it will continue to develop in the future. This is accomplished with, among otherthings, interviews, tests and already exist...

  20. Experience Report: Developing the Servo Web Browser Engine using Rust

    OpenAIRE

    Anderson, Brian; Bergstrom, Lars; Herman,David; Matthews, Josh; McAllister, Keegan; Goregaokar, Manish; Moffitt, Jack; Sapin, Simon

    2015-01-01

    All modern web browsers - Internet Explorer, Firefox, Chrome, Opera, and Safari - have a core rendering engine written in C++. This language choice was made because it affords the systems programmer complete control of the underlying hardware features and memory in use, and it provides a transparent compilation model. Servo is a project started at Mozilla Research to build a new web browser engine that preserves the capabilities of these other browser engines but also both takes advantage of ...

  1. LymPHOS 2.0: an update of a phosphosite database of primary human T cells.

    Science.gov (United States)

    Nguyen, Tien Dung; Vidal-Cortes, Oriol; Gallardo, Oscar; Abian, Joaquin; Carrascal, Montserrat

    2015-01-01

    LymPHOS is a web-oriented database containing peptide and protein sequences and spectrometric information on the phosphoproteome of primary human T-Lymphocytes. Current release 2.0 contains 15 566 phosphorylation sites from 8273 unique phosphopeptides and 4937 proteins, which correspond to a 45-fold increase over the original database description. It now includes quantitative data on phosphorylation changes after time-dependent treatment with activators of the TCR-mediated signal transduction pathway. Sequence data quality has also been improved with the use of multiple search engines for database searching. LymPHOS can be publicly accessed at http://www.lymphos.org. Database URL: http://www.lymphos.org.

  2. Pathway projector: web-based zoomable pathway browser using KEGG atlas and Google Maps API.

    Directory of Open Access Journals (Sweden)

    Nobuaki Kono

    Full Text Available BACKGROUND: Biochemical pathways provide an essential context for understanding comprehensive experimental data and the systematic workings of a cell. Therefore, the availability of online pathway browsers will facilitate post-genomic research, just as genome browsers have contributed to genomics. Many pathway maps have been provided online as part of public pathway databases. Most of these maps, however, function as the gateway interface to a specific database, and the comprehensiveness of their represented entities, data mapping capabilities, and user interfaces are not always sufficient for generic usage. METHODOLOGY/PRINCIPAL FINDINGS: We have identified five central requirements for a pathway browser: (1 availability of large integrated maps showing genes, enzymes, and metabolites; (2 comprehensive search features and data access; (3 data mapping for transcriptomic, proteomic, and metabolomic experiments, as well as the ability to edit and annotate pathway maps; (4 easy exchange of pathway data; and (5 intuitive user experience without the requirement for installation and regular maintenance. According to these requirements, we have evaluated existing pathway databases and tools and implemented a web-based pathway browser named Pathway Projector as a solution. CONCLUSIONS/SIGNIFICANCE: Pathway Projector provides integrated pathway maps that are based upon the KEGG Atlas, with the addition of nodes for genes and enzymes, and is implemented as a scalable, zoomable map utilizing the Google Maps API. Users can search pathway-related data using keywords, molecular weights, nucleotide sequences, and amino acid sequences, or as possible routes between compounds. In addition, experimental data from transcriptomic, proteomic, and metabolomic analyses can be readily mapped. Pathway Projector is freely available for academic users at (http://www.g-language.org/PathwayProjector/.

  3. Third millenium ideal gas and condensed phase thermochemical database for combustion (with update from active thermochemical tables).

    Energy Technology Data Exchange (ETDEWEB)

    Burcat, A.; Ruscic, B.; Chemistry; Technion - Israel Inst. of Tech.

    2005-07-29

    The thermochemical database of species involved in combustion processes is and has been available for free use for over 25 years. It was first published in print in 1984, approximately 8 years after it was first assembled, and contained 215 species at the time. This is the 7th printed edition and most likely will be the last one in print in the present format, which involves substantial manual labor. The database currently contains more than 1300 species, specifically organic molecules and radicals, but also inorganic species connected to combustion and air pollution. Since 1991 this database is freely available on the internet, at the Technion-IIT ftp server, and it is continuously expanded and corrected. The database is mirrored daily at an official mirror site, and at random at about a dozen unofficial mirror and 'finger' sites. The present edition contains numerous corrections and many recalculations of data of provisory type by the G3//B3LYP method, a high-accuracy composite ab initio calculation. About 300 species are newly calculated and are not yet published elsewhere. In anticipation of the full coupling, which is under development, the database started incorporating the available (as yet unpublished) values from Active Thermochemical Tables. The electronic version now also contains an XML file of the main database to allow transfer to other formats and ease finding specific information of interest. The database is used by scientists, educators, engineers and students at all levels, dealing primarily with combustion and air pollution, jet engines, rocket propulsion, fireworks, but also by researchers involved in upper atmosphere kinetics, astrophysics, abrasion metallurgy, etc. This introductory article contains explanations of the database and the means to use it, its sources, ways of calculation, and assessments of the accuracy of data.

  4. Overviewof Browser Forensics Technology%浏览器取证技术

    Institute of Scientific and Technical Information of China (English)

    陶姿邑; 毕善为

    2014-01-01

    随着信息时代的来临,一些不法分子在实施犯罪之前往往会上网查询信息,他们所用的浏览器便成了司法机关取证的关键。能否提取有效的犯罪线索或证据,取决于浏览器取证方法的好坏,本文介绍了目前主流的火狐浏览器、IE浏览器的取证技术,概述了IE缓存文件和基于SQLite数据库的火狐浏览器历史系统的日志文件结构,提出了信息恢复方法。通过对已删除日志文件或缓存文件信息提取,来达到获取证据的目的,分析用户的行为。%With the advent of the information age, some criminals always tend to query information from the Internet before they engaged in criminal activity. So the browser they used has become the key to the forensics of judicial authorities. Whether we can extract the effective evidence of crime depends on the forensics method of browser. This article introduces the forensics technology of Firefox and IE browser which are the current mainstream browsers, outlined the browser temporary file structure, such as the IE cache file and the SQLite database log files of the Firefox, proposed information recovery method. It can collect evidence and analyze the user’s behavior by extract the information of the deleted log files or cache files.

  5. Robust temporal resolution of MSCT cardiac scan by rotation-time update scheme based on analysis of patient ECG database

    Science.gov (United States)

    Glasberg, S.; Farjon, D.; Ankry, M.; Eisenbach, S.; Shnapp, M.; Altman, A.

    2007-03-01

    We have analyzed 144 ECG wave-forms that were taken during cardiac CT exams to determine in retrospect the optimized timing for updating the gantry rotation-time. A score was defined, according to the number of heart beats during X-ray on, which fulfill the temporal resolution (tR)condition, tR<100mSec. The temporal resolution calculation was based on dual-cycle π/2 sector segmentation, where the data required for any image is collected during two heart cycle. The results yield a significant improvement of the tR score with the rotation-time update method relative to using a fixed minimal rotation-time of the gantry. The analysis suggest that full heart scan with better than 100mSec temporal resolution per slice can routinely be achieved in 128 slices MSCT scanner by performing gantry rotation-time -update after patient starts its breath hold. At these conditions the required breath-hold time is expected to be less than 15 seconds.

  6. Phenol-Explorer 3.0: a major update of the Phenol-Explorer database to incorporate data on the effects of food processing on polyphenol content.

    Science.gov (United States)

    Rothwell, Joseph A; Perez-Jimenez, Jara; Neveu, Vanessa; Medina-Remón, Alexander; M'hiri, Nouha; García-Lobato, Paula; Manach, Claudine; Knox, Craig; Eisner, Roman; Wishart, David S; Scalbert, Augustin

    2013-01-01

    Polyphenols are a major class of bioactive phytochemicals whose consumption may play a role in the prevention of a number of chronic diseases such as cardiovascular diseases, type II diabetes and cancers. Phenol-Explorer, launched in 2009, is the only freely available web-based database on the content of polyphenols in food and their in vivo metabolism and pharmacokinetics. Here we report the third release of the database (Phenol-Explorer 3.0), which adds data on the effects of food processing on polyphenol contents in foods. Data on >100 foods, covering 161 polyphenols or groups of polyphenols before and after processing, were collected from 129 peer-reviewed publications and entered into new tables linked to the existing relational design. The effect of processing on polyphenol content is expressed in the form of retention factor coefficients, or the proportion of a given polyphenol retained after processing, adjusted for change in water content. The result is the first database on the effects of food processing on polyphenol content and, following the model initially defined for Phenol-Explorer, all data may be traced back to original sources. The new update will allow polyphenol scientists to more accurately estimate polyphenol exposure from dietary surveys.

  7. The Application of ArcSDE in the Fundamental Geographic Information Database Updating%ArcSDE 在基础地理信息数据库更新中的应用

    Institute of Scientific and Technical Information of China (English)

    孙朝犇; 马学民; 路轩轩; 侯家槐

    2016-01-01

    Through participating the dynamic updating project of 1∶50 000 terrain database of the updating of national fundamental ge-ographic information database and analyzing the general method of terrain database updating in"The Twelfth Five-Year Guideline”, the author proposes a new method based on ArcSDE, which supports multi-user distributed editing terrain database online.Then, taking Chaoyang as the research object, this paper constructs terrain database processing platform which includes centralized manage-ment, multi-user editing and updating by ArcSDE to complete the 2015 work of dynamic updating project of 1∶50 000 terrain data-base in Chaoyang City.Compared with the traditional updating method, this method can save the working time and improve working efficiency.%在国家1∶50000地形数据库动态更新过程中,笔者通过总结“十二五”期间传统地形数据库的更新方法,提出了基于ArcSDE的、支持多用户分布式在线整理、编辑地形数据库的新方法。本文以朝阳市作为研究对象,通过ArcSDE构建支持集中管理、多用户同步编辑和更新的数据库处理平台,完成了2015年朝阳市1∶50000地形数据库的更新工作,与以往传统更新方法相比,该方法节省作业时间,提高了工作效率。

  8. Jet browser model accelerated by GPUs

    Directory of Open Access Journals (Sweden)

    Forster Richárd

    2016-12-01

    Full Text Available In the last centuries the experimental particle physics began to develop thank to growing capacity of computers among others. It is allowed to know the structure of the matter to level of quark gluon. Plasma in the strong interaction. Experimental evidences supported the theory to measure the predicted results. Since its inception the researchers are interested in the track reconstruction. We studied the jet browser model, which was developed for 4π calorimeter. This method works on the measurement data set, which contain the components of interaction points in the detector space and it allows to examine the trajectory reconstruction of the final state particles. We keep the total energy in constant values and it satisfies the Gauss law. Using GPUs the evaluation of the model can be drastically accelerated, as we were able to achieve up to 223 fold speedup compared to a CPU based parallel implementation.

  9. Interactive metagenomic visualization in a Web browser

    Directory of Open Access Journals (Sweden)

    Phillippy Adam M

    2011-09-01

    Full Text Available Abstract Background A critical output of metagenomic studies is the estimation of abundances of taxonomical or functional groups. The inherent uncertainty in assignments to these groups makes it important to consider both their hierarchical contexts and their prediction confidence. The current tools for visualizing metagenomic data, however, omit or distort quantitative hierarchical relationships and lack the facility for displaying secondary variables. Results Here we present Krona, a new visualization tool that allows intuitive exploration of relative abundances and confidences within the complex hierarchies of metagenomic classifications. Krona combines a variant of radial, space-filling displays with parametric coloring and interactive polar-coordinate zooming. The HTML5 and JavaScript implementation enables fully interactive charts that can be explored with any modern Web browser, without the need for installed software or plug-ins. This Web-based architecture also allows each chart to be an independent document, making them easy to share via e-mail or post to a standard Web server. To illustrate Krona's utility, we describe its application to various metagenomic data sets and its compatibility with popular metagenomic analysis tools. Conclusions Krona is both a powerful metagenomic visualization tool and a demonstration of the potential of HTML5 for highly accessible bioinformatic visualizations. Its rich and interactive displays facilitate more informed interpretations of metagenomic analyses, while its implementation as a browser-based application makes it extremely portable and easily adopted into existing analysis packages. Both the Krona rendering code and conversion tools are freely available under a BSD open-source license, and available from: http://krona.sourceforge.net.

  10. JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles

    DEFF Research Database (Denmark)

    Mathelier, Anthony; Fornes, Oriol; Arenillas, David J;

    2016-01-01

    JASPAR (http://jaspar.genereg.net) is an open-access database storing curated, non-redundant transcription factor (TF) binding profiles representing transcription factor binding preferences as position frequency matrices for multiple species in six taxonomic groups. For this 2016 release, we...

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

    DEFF Research Database (Denmark)

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

    2008-01-01

    JASPAR is a popular open-access database for matrix models describing DNA-binding preferences for transcription factors and other DNA patterns. With its third major release, JASPAR has been expanded and equipped with additional functions aimed at both casual and power users. The heart of the JASPAR...

  12. YADBrowser: A Browser for Web-Based Educational Applications

    Science.gov (United States)

    Zaldivar, Vicente Arturo Romero; Arandia, Jon Ander Elorriaga; Brito, Mateo Lezcano

    2005-01-01

    In this article, the main characteristics of the educational browser YADBrowser are described. One of the main objectives of this project is to define new languages and object models which facilitate the creation of educational applications for the Internet. The fundamental characteristics of the object model of the browser are also described.…

  13. Hardening the Browser: Protecting Patron Privacy on the Internet

    OpenAIRE

    Phetteplace, Eric; Kern, Mary Kathleen

    2012-01-01

    As more and more time is spent accessing and producing content online, libraries need to position themselves to offer Internet privacy to patrons as well. This column details how to secure the web browser, from choosing state-of-the-art software to strong default settings to using add-ons to extend the capabilities of the browser.

  14. Ajax and Firefox: New Web Applications and Browsers

    Science.gov (United States)

    Godwin-Jones, Bob

    2005-01-01

    Alternative browsers are gaining significant market share, and both Apple and Microsoft are releasing OS upgrades which portend some interesting changes in Web development. Of particular interest for language learning professionals may be new developments in the area of Web browser based applications, particularly using an approach dubbed "Ajax."…

  15. Selfrando: Securing the Tor Browser against De-anonymization Exploits

    Directory of Open Access Journals (Sweden)

    Conti Mauro

    2016-10-01

    Full Text Available Tor is a well-known anonymous communication system used by millions of users, including journalists and civil rights activists all over the world. The Tor Browser gives non-technical users an easy way to access the Tor Network. However, many government organizations are actively trying to compromise Tor not only in regions with repressive regimes but also in the free world, as the recent FBI incidents clearly demonstrate. Exploiting software vulnerabilities in general, and browser vulnerabilities in particular, constitutes a clear and present threat to the Tor software. The Tor Browser shares a large part of its attack surface with the Firefox browser. Therefore, Firefox vulnerabilities (even patched ones are highly valuable to attackers trying to monitor users of the Tor Browser.

  16. Key Techniques for Dynamic Updating of National Fundamental Geographic Information Database%国家基础地理信息数据库动态更新总体技术

    Institute of Scientific and Technical Information of China (English)

    王东华; 刘建军

    2015-01-01

    One of the most important missions of fundamental surveying and mapping work is to keep the fundamental geographic information fresh .In this respect ,National Administration of Surveying ,Mapping and Geoinformation has launched the project of dynamic updating of national fundamental geographic information database since 2012 ,which aims to update 1∶50 000 ,1∶250 000 and 1∶1 000 000 national fundamental geographic information database continuously and quickly ,by updating and publishing once a year .This paper introduces the general technical thinking of dynamic updating , states main technical methods ,such as dynamic updating of fundamental database ,linkage updating of derived databases ,and multi‐tense database management and service and so on ,and finally introduces main technical character‐istics and engineering applications .%保持基础地理信息的现势性是我国基础测绘工作的重要使命。为此,国家测绘地理信息局于2012年启动了国家基础地理信息数据库动态更新工程,对我国1∶5万、1∶25万、1∶100万基础地理信息数据库进行持续快速更新,每年更新一次、发布一版。本文介绍了动态更新的总体技术思路,阐述了基础数据库动态更新、派生数据库联动更新、多时态数据库管理服务等主体技术方法,并介绍了主要技术特点和工程应用效果。

  17. 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...

  18. TcoF-DB v2: update of the database of human and mouse transcription co-factors and transcription factor interactions

    KAUST Repository

    Schmeier, Sebastian

    2016-10-17

    Transcription factors (TFs) play a pivotal role in transcriptional regulation, making them crucial for cell survival and important biological functions. For the regulation of transcription, interactions of different regulatory proteins known as transcription co-factors (TcoFs) and TFs are essential in forming necessary protein complexes. Although TcoFs themselves do not bind DNA directly, their influence on transcriptional regulation and initiation, although indirect, has been shown to be significant, with the functionality of TFs strongly influenced by the presence of TcoFs. In the TcoF-DB v2 database, we collect information on TcoFs. In this article, we describe updates and improvements implemented in TcoF-DB v2. TcoF-DB v2 provides several new features that enables exploration of the roles of TcoFs. The content of the database has significantly expanded, and is enriched with information from Gene Ontology, biological pathways, diseases and molecular signatures. TcoF-DB v2 now includes many more TFs; has substantially increased the number of human TcoFs to 958, and now includes information on mouse (418 new TcoFs). TcoF-DB v2 enables the exploration of information on TcoFs and allows investigations into their influence on transcriptional regulation in humans and mice. TcoF-DB v2 can be accessed at http://tcofdb.org/.

  19. A Newly Updated Database of Elevation-changes of the Greenand Ice Sheet to Study Surface Processes and Ice Dynamics

    Science.gov (United States)

    Schenk, A. F.; Csatho, B. M.; van den Broeke, M.; Kuipers Munneke, P.

    2015-12-01

    This paper reports about important upgrades of the Greenland Ice Sheet (GrIS) surface elevation and elevation-change database obtained with our Surface Elevation And Change detection (SERAC) software suite. We have developed SERAC to derive information from laser altimetry data, particularly time series of elevation changes and their partitioning into changes caused by ice dynamics. This allows direct investigation of ice dynamic processes that is much needed for improving the predictive power of ice sheet models. SERAC is different from most other change detection methods. It is based on detecting changes of surface patches, about 1 km by 1 km in size, rather than deriving elevation changes from individual laser points. The current database consists of ~100,000 time series with satellite laser altimetry data from ICESat, airborne laser observations obtained by NASA's Airborne Topographic Mapper (ATM) and the Land, Vegetation and Ice Sensor (LVIS). The upgrade is significant, because not only new observations from 2013 and 2014 have been added but also a number of improvements lead to a more comprehensive and consistent record of elevation-changes. First, we used the model that gives in addition to ice sheet also information about ice caps and glaciers (Rastner et al., 2012) for deciding if a laser point is on the ice sheet or ice cap. Then we added small gaps that exist in the ICESat GLA12 data set because the ice sheet mask is not wide enough. The new database is now more complete and will facilitate more accurate comparisons of mass balance studies obtained from the Gravity Recovery and Climate Experiment system (GRACE). For determining the part of a time series caused by ice dynamics we used the new firn compaction model and Surface Mass Balance (SMB) estimates from RACMO2.3. The new database spans the time period from 1993 to 2014. Adding new observations amounts to a spatial densification of the old record and at the same time extends the time domain by two

  20. BrainBrowser: distributed, web-based neurological data visualization.

    Science.gov (United States)

    Sherif, Tarek; Kassis, Nicolas; Rousseau, Marc-Étienne; Adalat, Reza; Evans, Alan C

    2014-01-01

    Recent years have seen massive, distributed datasets become the norm in neuroimaging research, and the methodologies used to analyze them have, in response, become more collaborative and exploratory. Tools and infrastructure are continuously being developed and deployed to facilitate research in this context: grid computation platforms to process the data, distributed data stores to house and share them, high-speed networks to move them around and collaborative, often web-based, platforms to provide access to and sometimes manage the entire system. BrainBrowser is a lightweight, high-performance JavaScript visualization library built to provide easy-to-use, powerful, on-demand visualization of remote datasets in this new research environment. BrainBrowser leverages modern web technologies, such as WebGL, HTML5 and Web Workers, to visualize 3D surface and volumetric neuroimaging data in any modern web browser without requiring any browser plugins. It is thus trivial to integrate BrainBrowser into any web-based platform. BrainBrowser is simple enough to produce a basic web-based visualization in a few lines of code, while at the same time being robust enough to create full-featured visualization applications. BrainBrowser can dynamically load the data required for a given visualization, so no network bandwidth needs to be waisted on data that will not be used. BrainBrowser's integration into the standardized web platform also allows users to consider using 3D data visualization in novel ways, such as for data distribution, data sharing and dynamic online publications. BrainBrowser is already being used in two major online platforms, CBRAIN and LORIS, and has been used to make the 1TB MACACC dataset openly accessible.

  1. BrainBrowser: distributed, web-based neurological data visualization

    Directory of Open Access Journals (Sweden)

    Tarek eSherif

    2015-01-01

    Full Text Available Recent years have seen massive, distributed datasets become the norm in neuroimaging research, and the methodologies used analyze them have, in response, become more collaborative and exploratory. Tools and infrastructure are continuously being developed and deployed to facilitate research in this context: grid computation platforms to process the data, distributed data stores to house and share them, high-speed networks to move them around and collaborative, often web-based, platforms to provide access to and sometimes manage the entire system. BrainBrowser is a lightweight, high-performance JavaScript visualization library built to provide easy-to-use, powerful, on-demand visualization of remote datasets in this new research environment. BrainBrowser leverages modern Web technologies, such as WebGL, HTML5 and Web Workers, to visualize 3D surface and volumetric neuroimaging data in any modern web browser without requiring any browser plugins. It is thus trivial to integrate BrainBrowser into any web-based platform. BrainBrowser is simple enough to produce a basic web-based visualization in a few lines of code, while at the same time being robust enough to create full-featured visualization applications. BrainBrowser can dynamically load the data required for a given visualization, so no network bandwidth needs to be waisted on data that will not be used. BrainBrowser's integration into the standardized web platform also allows users to consider using 3D data visualization in novel ways, such as for data distribution, data sharing and dynamic online publications. BrainBrowser is already being used in two major online platforms, CBRAIN and LORIS, and has been used to make the 1TB MACACC dataset openly accessible.

  2. Genetics of Late-Onset Alzheimer's Disease: Update from the Alzgene Database and Analysis of Shared Pathways

    Directory of Open Access Journals (Sweden)

    Paolo Olgiati

    2011-01-01

    Full Text Available The genetics of late-onset Alzheimer's disease (LOAD has taken impressive steps forwards in the last few years. To date, more than six-hundred genes have been linked to the disorder. However, only a minority of them are supported by a sufficient level of evidence. This review focused on such genes and analyzed shared biological pathways. Genetic markers were selected from a web-based collection (Alzgene. For each SNP in the database, it was possible to perform a meta-analysis. The quality of studies was assessed using criteria such as size of research samples, heterogeneity across studies, and protection from publication bias. This produced a list of 15 top-rated genes: APOE, CLU, PICALM, EXOC3L2, BIN1, CR1, SORL1, TNK1, IL8, LDLR, CST3, CHRNB2, SORCS1, TNF, and CCR2. A systematic analysis of gene ontology terms associated with each marker showed that most genes were implicated in cholesterol metabolism, intracellular transport of beta-amyloid precursor, and autophagy of damaged organelles. Moreover, the impact of these genes on complement cascade and cytokine production highlights the role of inflammatory response in AD pathogenesis. Gene-gene and gene-environment interactions are prominent issues in AD genetics, but they are not specifically featured in the Alzgene database.

  3. Geant4 application in a Web browser

    Science.gov (United States)

    Garnier, Laurent; Geant4 Collaboration

    2014-06-01

    Geant4 is a toolkit for the simulation of the passage of particles through matter. The Geant4 visualization system supports many drivers including OpenGL[1], OpenInventor, HepRep[2], DAWN[3], VRML, RayTracer, gMocren[4] and ASCIITree, with diverse and complementary functionalities. Web applications have an increasing role in our work, and thanks to emerging frameworks such as Wt [5], building a web application on top of a C++ application without rewriting all the code can be done. Because the Geant4 toolkit's visualization and user interface modules are well decoupled from the rest of Geant4, it is straightforward to adapt these modules to render in a web application instead of a computer's native window manager. The API of the Wt framework closely matches that of Qt [6], our experience in building Qt driver will benefit for Wt driver. Porting a Geant4 application to a web application is easy, and with minimal effort, Geant4 users can replicate this process to share their own Geant4 applications in a web browser.

  4. Method of Toponym Database Updating Based on Web Crawler%基于网络爬虫的地名数据库维护方法

    Institute of Scientific and Technical Information of China (English)

    张春菊; 张雪英; 朱少楠; 徐希涛

    2011-01-01

    目前,我国地名数据库建设存在大、中颗粒度地名集中,小颗粒度地名较为缺乏,地名资料陈旧、时效性较低,简称、别名等非标准地名信息和地名的相对位置信息缺失等问题.而地名数据库的更新维护工作主要通过人工测绘手段完成,存在周期长、成本高、效率低等缺点.针对这一问题,本文以现有地名数据库和空间关系词汇为基础,基于Google搜索引擎服务,提出一种以网页资源为数据源,利用网络爬虫技术和地名识别技术,进行地名数据库更新维护的方法.首先,设计以地名为主题的网络爬虫,实现非结构化的网页数据中海量空间敏感网页文本的主动获取;然后,采用HTML DOM技术解析空间敏感网页并应用CRF地名识别模型自动识别网页文本中地名;最后,设计相关算法进行网页文本中地名信息的自动解析,实现新地名和地名空间位置信息的获取,进行地名数据库的更新维护.以"南京师范大学仙林宾馆+西北"为空间检索实例,验证了此方法的可行性.%Generally, toponym database provides description information on place names and its spatial location and feature type. It provides basic information for national administration, economic development, domestic and foreign exchanges, etc. It is a basis for public place name services, particularly for Location-Based-Service (LBS) with a growing demand. Therefore, a toponym database with complete and timely place name information is a premise and guarantee for efficient LBS services. However, currently, there are some problems about place names in our national toponym database. Most of the place names are with a big particle size, and small particle sized and non-standard place names are in shortage, and there are no relative position descriptions of place names in toponym database. Moreover, toponym database updating is based on manual surveying with disadvantages of long cycle, high cost, low

  5. A new plug-in software architecture applied for a portable molecular structure browser.

    Science.gov (United States)

    Ueno, Y; Asai, K

    1997-01-01

    A new software configuration method using plug-in style components was established for the tool with the incremental development of software used in protein structural study. Our memory database provides the interface of data and functions among plug-in modules and its host program. A molecular structure browser program was developed together with several plug-in modules on our programming library that maintains graphics portability and user interfaces. This plug-in software architecture is generally useful for large-scale software development and for prototyping parts of the system.

  6. Quality Search Content: A Reality With Next Generation Browsers

    Digital Repository Service at National Institute of Oceanography (India)

    Lakshminarayana, S.

    the technological development for quality delivery. Some search engines look at the country, language, browser technical details (version, compatibility) etc, before delivery. However the missing parameters are the user characteristics. Search engines now need...

  7. A Telemetry Browser Built with Java Components

    Science.gov (United States)

    Poupart, E.

    In the context of CNES balloon scientific campaigns and telemetry survey field, a generic telemetry processing product, called TelemetryBrowser in the following, was developed reusing COTS, Java Components for most of them. Connection between those components relies on a software architecture based on parameter producers and parameter consumers. The first one transmit parameter values to the second one which has registered to it. All of those producers and consumers can be spread over the network thanks to Corba, and over every kind of workstation thanks to Java. This gives a very powerful mean to adapt to constraints like network bandwidth, or workstations processing or memory. It's also very useful to display and correlate at the same time information coming from multiple and various sources. An important point of this architecture is that the coupling between parameter producers and parameter consumers is reduced to the minimum and that transmission of information on the network is made asynchronously. So, if a parameter consumer goes down or runs slowly, there is no consequence on the other consumers, because producers don't wait for their consumers to finish their data processing before sending it to other consumers. An other interesting point is that parameter producers, also called TelemetryServers in the following are generated nearly automatically starting from a telemetry description using Flavori component. Keywords Java components, Corba, distributed application, OpenORBii, software reuse, COTS, Internet, Flavor. i Flavor (Formal Language for Audio-Visual Object Representation) is an object-oriented media representation language being developed at Columbia University. It is designed as an extension of Java and C++ and simplifies the development of applications that involve a significant media processing component (encoding, decoding, editing, manipulation, etc.) by providing bitstream representation semantics. (flavor.sourceforge.net) ii Open

  8. CompaGB: An open framework for genome browsers comparison

    Directory of Open Access Journals (Sweden)

    Chiapello Hélène

    2011-05-01

    Full Text Available Abstract Background Tools to visualize and explore genomes hold a central place in genomics and the diversity of genome browsers has increased dramatically over the last few years. It often turns out to be a daunting task to compare and choose a well-adapted genome browser, as multidisciplinary knowledge is required to carry out this task and the number of tools, functionalities and features are overwhelming. Findings To assist in this task, we propose a community-based framework based on two cornerstones: (i the implementation of industry promoted software qualification method (QSOS adapted for genome browser evaluations, and (ii a web resource providing numerous facilities either for visualizing comparisons or performing new evaluations. We formulated 60 criteria specifically for genome browsers, and incorporated another 65 directly from QSOS's generic section. Those criteria aim to answer versatile needs, ranging from a biologist whose interest primarily lies into user-friendly and informative functionalities, a bioinformatician who wants to integrate the genome browser into a wider framework, or a computer scientist who might choose a software according to more technical features. We developed a dedicated web application to enrich the existing QSOS functionalities (weighting of criteria, user profile with features of interest to a community-based framework: easy management of evolving data, user comments... Conclusions The framework is available at http://genome.jouy.inra.fr/CompaGB. It is open to anyone who wishes to participate in the evaluations. It helps the scientific community to (1 choose a genome browser that would better fit their particular project, (2 visualize features comparatively with easily accessible formats, such as tables or radar plots and (3 perform their own evaluation against the defined criteria. To illustrate the CompaGB functionalities, we have evaluated seven genome browsers according to the implemented methodology

  9. 顾及语义差异的基础地理信息客户数据库更新实施模型%Fundamental Geo-information Client Database Updating Model Considering Semantic Heterogeneities

    Institute of Scientific and Technical Information of China (English)

    王育红; 牛亚辉; 林艳

    2011-01-01

    Client database updating refers to the process of utilizing the related information of the changed and updated features in the new version of fundamental geographical information database to perform the corresponding cascade updates on client database for ensuring it also has good currency. The current researches emphasize particularly on the distribution and delivery of updating information, but how to efficiently implement the updating of client database,especially in the case of semantic heterogeneity, doesn't be considered fully. Aiming to this problem, the semantic heterogeneities between two databases are firstly summarized, and then their impacts on the updating implementation process are described from some aspects such as efficiency, the completeness, the consistency and correctness of data. Finally, the updating implementation model consisted of three basic operations, semantic matching, updates extraction and updates integration, is proposed according to the theory of semantic mapping and transformation, and the execution strategies and key steps of these operations are respectively discussed. Through these discussions and analysis, the concept of fundamental geoqnformation client database updating, its implementation requirements and technical difficulties, the corresponding solutions, the key problems needed to be further researched are made clean Based on the current works and the future researches,an automated and efficient software tool for client database updating is promising to be developed and realized.%客户数据库更新就是利用新版基础地理数据库中更新变化的要素信息,对客户数据库进行相应的级联更新,以使其具有良好现势性的过程.现有研究大多侧重于基础地理数据库更新信息的分发与提供,而没有充分考虑语义差异环境下如何高效实施客户数据库更新的具体问题.针对此,该文概括了基础地理数据库与其客户数据库之间潜在的各种语义

  10. Database Description - RMG | 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 RMG Database... Description General information of database Database name RMG Alternative name Rice Mitochondri...ational Institute of Agrobiological Sciences E-mail : Database classification Nucleotide Sequence Databases ...Organism Taxonomy Name: Oryza sativa Japonica Group Taxonomy ID: 39947 Database description This database co...e of rice mitochondrial genome and information on the analysis results. Features and manner of utilization of database

  11. The Yak genome database: an integrative database for studying yak biology and high-altitude adaption

    Directory of Open Access Journals (Sweden)

    Hu Quanjun

    2012-11-01

    Full Text Available Abstract Background The yak (Bos grunniens is a long-haired bovine that lives at high altitudes and is an important source of milk, meat, fiber and fuel. The recent sequencing, assembly and annotation of its genome are expected to further our understanding of the means by which it has adapted to life at high altitudes and its ecologically important traits. Description The Yak Genome Database (YGD is an internet-based resource that provides access to genomic sequence data and predicted functional information concerning the genes and proteins of Bos grunniens. The curated data stored in the YGD includes genome sequences, predicted genes and associated annotations, non-coding RNA sequences, transposable elements, single nucleotide variants, and three-way whole-genome alignments between human, cattle and yak. YGD offers useful searching and data mining tools, including the ability to search for genes by name or using function keywords as well as GBrowse genome browsers and/or BLAST servers, which can be used to visualize genome regions and identify similar sequences. Sequence data from the YGD can also be downloaded to perform local searches. Conclusions A new yak genome database (YGD has been developed to facilitate studies on high-altitude adaption and bovine genomics. The database will be continuously updated to incorporate new information such as transcriptome data and population resequencing data. The YGD can be accessed at http://me.lzu.edu.cn/yak.

  12. 简述Browser/Server的三层结构体系%On the Three- tier Structure System of Browser/ Server

    Institute of Scientific and Technical Information of China (English)

    严伟; 黄红霞

    2007-01-01

    随着Internet广泛的应用,传统的二层Client/Server的结构暴露出了它的局限性,于是,一种新兴的体系结构Browser/Server应运而生,并获得飞速发展.它是一种由传统的二层Client/Server结构发展而来的三层Browser/Server结构在Web上应用的特例.

  13. Update of the pompe disease mutation database with 60 novel GAA sequence variants and additional studies on the functional effect of 34 previously reported variants.

    Science.gov (United States)

    Kroos, Marian; Hoogeveen-Westerveld, Marianne; Michelakakis, Helen; Pomponio, Robert; Van der Ploeg, Ans; Halley, Dicky; Reuser, Arnold

    2012-08-01

    Pompe disease is an autosomal recessive lysosomal glycogen storage disorder, characterized by progressive muscle weakness. Deficiency of acid α-glucosidase (EC; 3.2.1.20/3) can be caused by numerous pathogenic variants in the GAA gene. The Pompe Disease Mutation Database at http://www.pompecenter.nl aims to list all variants and their effect. This update reports on 94 variants. We examined 35 novel and 34 known mutations by site-directed mutagenesis and transient expression in COS-7 cells or HEK293T cells. Each of these mutations was given a severity rating using a previously published system, based on the level of acid α-glucosidase activity in medium and transfected cells and on the quantity and quality of the different molecular mass species in the posttranslational modification and transport of acid α-glucosidase. This approach enabled to classify 55 missense mutations as pathogenic and 13 as likely nonpathogenic. Based on their nature and the use of in silico analysis (Alamut® software), 12 of the additional 25 novel mutations were predicted to be pathogenic including 4 splicing mutations, 6 mutations leading to frameshift, and 2 point mutations causing stop codons. Seven of the additional mutations were considered nonpathogenic (4 silent and 3 occurring in intron regions), and 6 are still under investigation.

  14. Hands Free Browser-‘An Interactive Speech Browser for Visually Handicapped’

    Directory of Open Access Journals (Sweden)

    Sachin Kapoor

    2014-03-01

    Full Text Available These days the technology of browsing through voice is increasing rapidly. The paper concentrate on voice based approach of browsing rather than operating on textual mode, which uses speech recognition and speech synthesis methods or algorithms to implement speech technology. Now-a-days the learning over the web has become an important mode of education. However, the persons with no vision i.e. blind persons who represent a major population can’t access the content over the web efficiently in the current browsers, as they are unable to see the different links which are present in the web pages. This paper propose a system which allows these people to access the web, it comprises of various modules, such as: Speech Recognition, Speech Synthesis, Text to Braille and Braille to Text conversion. The paper also summarizes the algorithms used for above modules.

  15. Quality Control of 1:50 000 Topographic Database Monitoring Updating%浅谈1∶50000地形数据库动态更新质量控制

    Institute of Scientific and Technical Information of China (English)

    房龙; 张俊; 黄伟佳

    2013-01-01

    针对国家基础地理信息数据库动态更新的特点,介绍了1∶50 000地形数据库重点要素更新过程中新的质量要素,探讨了一些增量成果数据的质量控制方法,从而满足项目更新的要求.%According to characteristics of the national fundamental geographic information database updating, this paper introduces the 1:50 000 topographic database key elements updating in the process of new quality elements, discusses quality control methods of some incremental result data, so as to meet the project requirements.

  16. Design and Implementation of Browser based GPS/GPRS Vehicle Positioning and Tracking System

    Directory of Open Access Journals (Sweden)

    Zhang Keqiang

    2015-01-01

    Full Text Available This paper mainly describes a vehicle positioning and tracking system which is based on browser, GPS and GPRS. And this system takes advantage of Baidu Map as basic material to show vehicle status, which enables drivers and supervisor to monitor the vehicle’s current and past positions. The vehicle’s location data is got from satellites, and these data is sent to the central server through GPRS, the central server will store formatted data into the database after the data is parsed; Later, these data stored in the database will be used by web application and displayed on the map as markers. This paper also involves the implementation on mobile side, and this system used Baidu map JavaScript interface, Ajax, JSP and JSON to implement the vehicle positioning and tracking system.

  17. Genomic Database Searching.

    Science.gov (United States)

    Hutchins, James R A

    2017-01-01

    The availability of reference genome sequences for virtually all species under active research has revolutionized biology. Analyses of genomic variations in many organisms have provided insights into phenotypic traits, evolution and disease, and are transforming medicine. All genomic data from publicly funded projects are freely available in Internet-based databases, for download or searching via genome browsers such as Ensembl, Vega, NCBI's Map Viewer, and the UCSC Genome Browser. These online tools generate interactive graphical outputs of relevant chromosomal regions, showing genes, transcripts, and other genomic landmarks, and epigenetic features mapped by projects such as ENCODE.This chapter provides a broad overview of the major genomic databases and browsers, and describes various approaches and the latest resources for searching them. Methods are provided for identifying genomic locus and sequence information using gene names or codes, identifiers for DNA and RNA molecules and proteins; also from karyotype bands, chromosomal coordinates, sequences, motifs, and matrix-based patterns. Approaches are also described for batch retrieval of genomic information, performing more complex queries, and analyzing larger sets of experimental data, for example from next-generation sequencing projects.

  18. Savant Genome Browser 2: visualization and analysis for population-scale genomics.

    Science.gov (United States)

    Fiume, Marc; Smith, Eric J M; Brook, Andrew; Strbenac, Dario; Turner, Brian; Mezlini, Aziz M; Robinson, Mark D; Wodak, Shoshana J; Brudno, Michael

    2012-07-01

    High-throughput sequencing (HTS) technologies are providing an unprecedented capacity for data generation, and there is a corresponding need for efficient data exploration and analysis capabilities. Although most existing tools for HTS data analysis are developed for either automated (e.g. genotyping) or visualization (e.g. genome browsing) purposes, such tools are most powerful when combined. For example, integration of visualization and computation allows users to iteratively refine their analyses by updating computational parameters within the visual framework in real-time. Here we introduce the second version of the Savant Genome Browser, a standalone program for visual and computational analysis of HTS data. Savant substantially improves upon its predecessor and existing tools by introducing innovative visualization modes and navigation interfaces for several genomic datatypes, and synergizing visual and automated analyses in a way that is powerful yet easy even for non-expert users. We also present a number of plugins that were developed by the Savant Community, which demonstrate the power of integrating visual and automated analyses using Savant. The Savant Genome Browser is freely available (open source) at www.savantbrowser.com.

  19. Download - KEGG MEDICUS | 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 ...F URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - KEGG MEDICUS | LSDB Archive ...

  20. Download - PLACE | 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 ... About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - PLACE | LSDB Archive ...

  1. Download - KOME | 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 ... About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - KOME | LSDB Archive ...

  2. Download - GETDB | 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 ...io About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - GETDB | LSDB Archive ...

  3. Download - RMG | 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 ...About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - RMG | LSDB Archive ...

  4. Mapping data - KOME | 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 ...bout This Database Database Description Download License Update History of This Database Site Policy | Contact Us Mapping data - KOME | LSDB Archive ...

  5. 基础地理信息数据库动态更新生产技术研究%Study on Dynamic Updating Production Technology of Fundamental Geographic Information Database

    Institute of Scientific and Technical Information of China (English)

    刘雪松; 吴琼; 张俊

    2013-01-01

    结合国家基础地理信息数据库动态更新工程,探索满足基础地理信息数据库动态更新目标的软件系统,达到更新技术标准统一规范,质量检验高效严谨,数据管理科学合理,从而为基础地理信息数据库的“应需适时更新”提供快捷方便有效的技术保障。%With the dynamic updating project of national fundamental geography information database , software system has been ex-plored to satisfy the target of dynamic updating production of fundamental geographic information database , to achieve the uniform technical standards , the strict and efficient quality inspection , the scientific and reasonable data management , so as to provide conven-ient and effective technical support on demand updating of fundamental geographic information database .

  6. AUGMENTED REALITY BROWSERS: A PROPOSAL FOR ARCHITECTURAL STANDARDIZATION

    Directory of Open Access Journals (Sweden)

    Fernando Sambinelli

    2015-01-01

    Full Text Available The technology evolution of smartphones, systems and the growing of telecommunications, allow the use of Augmented Reality in the exploration of geo-referenced information, complementing the real environment of the users with various types of content displayed on robust mobile cameras through applications called augmented reality browsers. Although this type of application is being in development and growing use by society, the technology, and especially its software architecture do not have any kind of standardization. This work presents concepts about augmented reality browsers for mobile devices. It shows the main aspects and applications of those types of reality. Besides that, the specific features of those types of architecture are discussed and compared, and new architecture, whose most relevant feature is the interoperability of applications in various platforms for mobile devices, are presented. This work has the objective to develop an architectural framework for the development of these browsers.

  7. Introgression browser: high-throughput whole-genome SNP visualization.

    Science.gov (United States)

    Aflitos, Saulo Alves; Sanchez-Perez, Gabino; de Ridder, Dick; Fransz, Paul; Schranz, Michael E; de Jong, Hans; Peters, Sander A

    2015-04-01

    Breeding by introgressive hybridization is a pivotal strategy to broaden the genetic basis of crops. Usually, the desired traits are monitored in consecutive crossing generations by marker-assisted selection, but their analyses fail in chromosome regions where crossover recombinants are rare or not viable. Here, we present the Introgression Browser (iBrowser), a bioinformatics tool aimed at visualizing introgressions at nucleotide or SNP (Single Nucleotide Polymorphisms) accuracy. The software selects homozygous SNPs from Variant Call Format (VCF) information and filters out heterozygous SNPs, multi-nucleotide polymorphisms (MNPs) and insertion-deletions (InDels). For data analysis iBrowser makes use of sliding windows, but if needed it can generate any desired fragmentation pattern through General Feature Format (GFF) information. In an example of tomato (Solanum lycopersicum) accessions we visualize SNP patterns and elucidate both position and boundaries of the introgressions. We also show that our tool is capable of identifying alien DNA in a panel of the closely related S. pimpinellifolium by examining phylogenetic relationships of the introgressed segments in tomato. In a third example, we demonstrate the power of the iBrowser in a panel of 597 Arabidopsis accessions, detecting the boundaries of a SNP-free region around a polymorphic 1.17 Mbp inverted segment on the short arm of chromosome 4. The architecture and functionality of iBrowser makes the software appropriate for a broad set of analyses including SNP mining, genome structure analysis, and pedigree analysis. Its functionality, together with the capability to process large data sets and efficient visualization of sequence variation, makes iBrowser a valuable breeding tool.

  8. GeneBrowser 2: an application to explore and identify common biological traits in a set of genes

    Directory of Open Access Journals (Sweden)

    Oliveira José

    2010-07-01

    Full Text Available Abstract Background The development of high-throughput laboratory techniques created a demand for computer-assisted result analysis tools. Many of these techniques return lists of genes whose interpretation requires finding relevant biological roles for the problem at hand. The required information is typically available in public databases, and usually, this information must be manually retrieved to complement the analysis. This process is a very time-consuming task that should be automated as much as possible. Results GeneBrowser is a web-based tool that, for a given list of genes, combines data from several public databases with visualisation and analysis methods to help identify the most relevant and common biological characteristics. The functionalities provided include the following: a central point with the most relevant biological information for each inserted gene; a list of the most related papers in PubMed and gene expression studies in ArrayExpress; and an extended approach to functional analysis applied to Gene Ontology, homologies, gene chromosomal localisation and pathways. Conclusions GeneBrowser provides a unique entry point to several visualisation and analysis methods, providing fast and easy analysis of a set of genes. GeneBrowser fills the gap between Web portals that analyse one gene at a time and functional analysis tools that are limited in scope and usually desktop-based.

  9. SNUGB: a versatile genome browser supporting comparative and functional fungal genomics

    Directory of Open Access Journals (Sweden)

    Kim Seungill

    2008-12-01

    Full Text Available Abstract Background Since the full genome sequences of Saccharomyces cerevisiae were released in 1996, genome sequences of over 90 fungal species have become publicly available. The heterogeneous formats of genome sequences archived in different sequencing centers hampered the integration of the data for efficient and comprehensive comparative analyses. The Comparative Fungal Genomics Platform (CFGP was developed to archive these data via a single standardized format that can support multifaceted and integrated analyses of the data. To facilitate efficient data visualization and utilization within and across species based on the architecture of CFGP and associated databases, a new genome browser was needed. Results The Seoul National University Genome Browser (SNUGB integrates various types of genomic information derived from 98 fungal/oomycete (137 datasets and 34 plant and animal (38 datasets species, graphically presents germane features and properties of each genome, and supports comparison between genomes. The SNUGB provides three different forms of the data presentation interface, including diagram, table, and text, and six different display options to support visualization and utilization of the stored information. Information for individual species can be quickly accessed via a new tool named the taxonomy browser. In addition, SNUGB offers four useful data annotation/analysis functions, including 'BLAST annotation.' The modular design of SNUGB makes its adoption to support other comparative genomic platforms easy and facilitates continuous expansion. Conclusion The SNUGB serves as a powerful platform supporting comparative and functional genomics within the fungal kingdom and also across other kingdoms. All data and functions are available at the web site http://genomebrowser.snu.ac.kr/.

  10. Download - Yeast Interacting Proteins Database | 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 ...らダウンロード Joomla SEF URLs by Artio About This Database Database Description Download License Update History of

  11. The project browser: Supporting information access for a project team

    NARCIS (Netherlands)

    Cremers, A.H.M.; Kuiper, I.; Groenewegen, P.; Post, W.M.

    2007-01-01

    Abstract. The objective of our study was to design and evaluate a user interface concept for a so-called Project Browser, following a user-centered design method. Previous work has suggested that users prefer to access project-related information instrumental to the task they have to carry out. Firs

  12. The Project Browser : Supporting information access for a project team

    NARCIS (Netherlands)

    Cremers, A.H.M.; Kuijper, I.; Groenewegen, P.L.M.; Post, W.M.

    2007-01-01

    The objective of our study was to design and evaluate a user interface concept for a so-called Project Browser, following a user-centered design method. Previous work has suggested that users prefer to access project-related information instrumental to the task they have to carry out. First, a domai

  13. EuPathDB: the eukaryotic pathogen genomics database resource

    Science.gov (United States)

    Aurrecoechea, Cristina; Barreto, Ana; Basenko, Evelina Y.; Brestelli, John; Brunk, Brian P.; Cade, Shon; Crouch, Kathryn; Doherty, Ryan; Falke, Dave; Fischer, Steve; Gajria, Bindu; Harb, Omar S.; Heiges, Mark; Hertz-Fowler, Christiane; Hu, Sufen; Iodice, John; Kissinger, Jessica C.; Lawrence, Cris; Li, Wei; Pinney, Deborah F.; Pulman, Jane A.; Roos, David S.; Shanmugasundram, Achchuthan; Silva-Franco, Fatima; Steinbiss, Sascha; Stoeckert, Christian J.; Spruill, Drew; Wang, Haiming; Warrenfeltz, Susanne; Zheng, Jie

    2017-01-01

    The Eukaryotic Pathogen Genomics Database Resource (EuPathDB, http://eupathdb.org) is a collection of databases covering 170+ eukaryotic pathogens (protists & fungi), along with relevant free-living and non-pathogenic species, and select pathogen hosts. To facilitate the discovery of meaningful biological relationships, the databases couple preconfigured searches with visualization and analysis tools for comprehensive data mining via intuitive graphical interfaces and APIs. All data are analyzed with the same workflows, including creation of gene orthology profiles, so data are easily compared across data sets, data types and organisms. EuPathDB is updated with numerous new analysis tools, features, data sets and data types. New tools include GO, metabolic pathway and word enrichment analyses plus an online workspace for analysis of personal, non-public, large-scale data. Expanded data content is mostly genomic and functional genomic data while new data types include protein microarray, metabolic pathways, compounds, quantitative proteomics, copy number variation, and polysomal transcriptomics. New features include consistent categorization of searches, data sets and genome browser tracks; redesigned gene pages; effective integration of alternative transcripts; and a EuPathDB Galaxy instance for private analyses of a user's data. Forthcoming upgrades include user workspaces for private integration of data with existing EuPathDB data and improved integration and presentation of host–pathogen interactions. PMID:27903906

  14. EuPathDB: the eukaryotic pathogen genomics database resource.

    Science.gov (United States)

    Aurrecoechea, Cristina; Barreto, Ana; Basenko, Evelina Y; Brestelli, John; Brunk, Brian P; Cade, Shon; Crouch, Kathryn; Doherty, Ryan; Falke, Dave; Fischer, Steve; Gajria, Bindu; Harb, Omar S; Heiges, Mark; Hertz-Fowler, Christiane; Hu, Sufen; Iodice, John; Kissinger, Jessica C; Lawrence, Cris; Li, Wei; Pinney, Deborah F; Pulman, Jane A; Roos, David S; Shanmugasundram, Achchuthan; Silva-Franco, Fatima; Steinbiss, Sascha; Stoeckert, Christian J; Spruill, Drew; Wang, Haiming; Warrenfeltz, Susanne; Zheng, Jie

    2017-01-04

    The Eukaryotic Pathogen Genomics Database Resource (EuPathDB, http://eupathdb.org) is a collection of databases covering 170+ eukaryotic pathogens (protists & fungi), along with relevant free-living and non-pathogenic species, and select pathogen hosts. To facilitate the discovery of meaningful biological relationships, the databases couple preconfigured searches with visualization and analysis tools for comprehensive data mining via intuitive graphical interfaces and APIs. All data are analyzed with the same workflows, including creation of gene orthology profiles, so data are easily compared across data sets, data types and organisms. EuPathDB is updated with numerous new analysis tools, features, data sets and data types. New tools include GO, metabolic pathway and word enrichment analyses plus an online workspace for analysis of personal, non-public, large-scale data. Expanded data content is mostly genomic and functional genomic data while new data types include protein microarray, metabolic pathways, compounds, quantitative proteomics, copy number variation, and polysomal transcriptomics. New features include consistent categorization of searches, data sets and genome browser tracks; redesigned gene pages; effective integration of alternative transcripts; and a EuPathDB Galaxy instance for private analyses of a user's data. Forthcoming upgrades include user workspaces for private integration of data with existing EuPathDB data and improved integration and presentation of host-pathogen interactions.

  15. HOME USERS SECURITY AND THE WEB BROWSER INBUILT SETTINGS, FRAMEWORK TO SETUP IT AUTOMATICALLY

    Directory of Open Access Journals (Sweden)

    Mohammed Serrhini

    2013-01-01

    Full Text Available We are living in the electronic age where electronic transactions such as e-mail, e-banking, e-commerce and e-learning becoming more and more prominent. To access online for this services, the web browser is today’s almost unique software used. These days’ hackers know that browsers are installed into all computers and can be used to compromise a machine by distributing malware via malicious or hacked websites. Also these sites use JavaScript to manipulate browsers and can drive user system to failures. Each browser have inbuilt features setting that define his behavior, unfortunately most of end users are unwilling to enable or disable this features securely, because many of them still do not understand even basic security concepts nor variety of security technologies present in a browser. This study will deeply discuss specific modern browser inbuilt features settings and associated security risks and we present a framework developed to enhance user surfing safety by configuring automatically all installed browsers features settings securely, we call it Automatic Safe Browser Launcher, to solidify the claim, we check each browser before and after with free tool (browser_tests-1.03 which is a collection of test cases to test browser vulnerability. The more configured security features your browser has, the better protected you are from online threats.

  16. Trajectory Browser: An Online Tool for Interplanetary Trajectory Analysis and Visualization

    Science.gov (United States)

    Foster, Cyrus James

    2013-01-01

    The trajectory browser is a web-based tool developed at the NASA Ames Research Center for finding preliminary trajectories to planetary bodies and for providing relevant launch date, time-of-flight and (Delta)V requirements. The site hosts a database of transfer trajectories from Earth to planets and small-bodies for various types of missions such as rendezvous, sample return or flybys. A search engine allows the user to find trajectories meeting desired constraints on the launch window, mission duration and (Delta)V capability, while a trajectory viewer tool allows the visualization of the heliocentric trajectory and the detailed mission itinerary. The anticipated user base of this tool consists primarily of scientists and engineers designing interplanetary missions in the context of pre-phase A studies, particularly for performing accessibility surveys to large populations of small-bodies.

  17. A LITERATURE SURVEY ON ANTI-PHISHING BROWSER EXTENSIONS

    Directory of Open Access Journals (Sweden)

    Oinam Bhopen Singh

    2015-08-01

    Full Text Available Phishing is the fraudulent acquisition of personal information like username, password, credit card information, etc. by tricking an individual into believing that the attacker is a trustworthy entity. It is affecting all the major sector of industry day by day with lots of misuse of user’s credentials. So in today online environment we need to protect the data from phishing and safeguard our information, which can be done through anti-phishing tools. Currently there are many freely available anti-phishing browser extensions tools that warns user when they are browsing a suspected phishing site. In this paper we did a literature survey of some of the commonly and popularly used anti-phishing browser extensions by reviewing the existing anti-phishing techniques along with their merits and demerits.

  18. PIXASTIC: STEGANOGRAPHY BASED ANTI-PHISHING BROWSER PLUG-IN

    OpenAIRE

    P.Thiyagarajan; G.Aghila; V. Prasanna Venkatesan

    2012-01-01

    In spite of existence of many standard security mechanisms for ensuring secure e- Commerce business, users still fall prey for onlin e attacks. One such simple but powerful attack is ‘Phishing’. Phishing is the most alarming threat in the e-Commerce world and effective anti-phishing technique is the need of the hour. This paper focuses on a novel anti-phishing browser plug-in which uses information hiding technique - Steganography. A Robust Message based Im...

  19. Pixastic: Steganography based Anti-Phihsing Browser Plug-in

    OpenAIRE

    P.Thiyagarajan; G.Aghila; Venkatesan, V. Prasanna

    2012-01-01

    In spite of existence of many standard security mechanisms for ensuring secure e-Commerce business, users still fall prey for online attacks. One such simple but powerful attack is 'Phishing'. Phishing is the most alarming threat in the e-Commerce world and effective anti-phishing technique is the need of the hour. This paper focuses on a novel anti-phishing browser plug-in which uses information hiding technique - Steganography. A Robust Message based Image Steganography (RMIS) algorithm has...

  20. Figure summarizer browser extensions for PubMed Central

    OpenAIRE

    Agarwal, Shashank; Yu, Hong

    2011-01-01

    Summary: Figures in biomedical articles present visual evidence for research facts and help readers understand the article better. However, when figures are taken out of context, it is difficult to understand their content. We developed a summarization algorithm to summarize the content of figures and used it in our figure search engine (http://figuresearch.askhermes.org/). In this article, we report on the development of web browser extensions for Mozilla Firefox, Google Chrome and Apple Saf...

  1. Web Voice Browser Based on an ISLPC Text-to-Speech Algorithm

    Institute of Scientific and Technical Information of China (English)

    LIAO Rikun; JI Yuefeng; LI Hui

    2006-01-01

    A kind of Web voice browser based on improved synchronous linear predictive coding (ISLPC) and Text-to-Speech (TTS) algorithm and Internet application was proposed. The paper analyzes the features of TTS system with ISLPC speech synthesis and discusses the design and implementation of ISLPC TTS-based Web voice browser. The browser integrates Web technology, Chinese information processing, artificial intelligence and the key technology of Chinese ISLPC speech synthesis. It's a visual and audible web browser that can improve information precision for network users. The evaluation results show that ISLPC-based TTS model has a better performance than other browsers in voice quality and capability of identifying Chinese characters.

  2. Using a Web Browser for Environmental and Climate Change Studies

    Science.gov (United States)

    Bess, T. Dale; Stackhouse, Paul; Mangosing, Daniel; Smith, G. Louis

    2005-01-01

    A new web browser for viewing and manipulating meteorological data sets is located on a web server at NASA, Langley Research Center. The browser uses a live access server (LAS) developed by the Thermal Modeling and Analysis Project at NOAA's Pacific Marine Environmental Laboratory. LAS allows researchers to interact directly with the data to view, select, and subset the data in terms of location (latitude, longitude) and time such as day, month, or year. In addition, LAS can compare two data sets and can perform averages and variances, LAS is used here to show how it functions as an internet/web browser for use by the scientific and educational community. In particular its versatility in displaying and manipulating data sets of atmospheric measurements in the earth's radiation budget (ERB) or energy balance, which includes measurements of absorbed solar radiation, reflected shortwave radiation (RSW), thermal outgoing longwave radiation (OLR), and net radiation is demonstrated. These measurements are from the Clouds and the Earth's Radiant Energy System (CERES) experiment and the surface radiation budget (SRB) experiment.

  3. Detecting and Preventing Security Threats on Servers and Browsers

    Directory of Open Access Journals (Sweden)

    Mr. Nandish. U. G Dr. Balakrishna. R Mr. Naveen. L Mr. Anand Kumar K. S

    2012-02-01

    Full Text Available Our reliance on web based services through browsers for everyday life activities has increased over the years. Everyday new vulnerabilities are found in what was previously believed to be secure applications, unlocking new risks and security hazards that can be exploited by malicious advertisers or intruders compromising the security of systems. Using cross site scripting techniques intruders can hijack web sessions and craft credible phishing sites. Similarly, intruders may harm the server by uploading malicious executables and batch files. On the other hand the java script code downloaded into browser can attack client machines to steal user’s credentials (XSS attacks and lure users into providing sensitive information to unauthorized parties (Phishing attacks. It is proposed here a model detecting and preventing malicious files and cross site scripting attacks based on monitoring JavaScript code execution and comparing the execution to high level policies, to detect malicious code behavior. The solution also protects the servers from dangerous DOS commands and executable files. The model follows an approach similar to hackers and security analyst to discover vulnerabilities in networkconnected web servers. It uses both manually and automatically generated rules to mitigate possible cross site scripting attacks. The work undertaken covers the solutions preventing client machines from stealing user’s credentials by using cookies hijacking as well as preventing the browsers from crash.

  4. 国家1:50000地形数据库重点要素动态更新%Updating Key Features of National 1:50k Topographic Database

    Institute of Scientific and Technical Information of China (English)

    刘建军; 赵仁亮; 张元杰; 李雪梅; 刘建炜

    2014-01-01

    国家1:50000地形数据库是国家基础地理信息数据库的主要内容之一,是用途最广、使用频率最多的基础测绘成果,保持其现势性是我国基础测绘工作的重要使命。2012年国家测绘地理信息局组织实施了对该数据库的快速动态更新,实现了每年更新一次,每年发布新版。本文主要总结介绍了全国1:50000地形数据库动态更新项目取得的主要创新和数据成果。%National 1:50 000 topographic database is one of the most widely used and most frequently used basic surveying and mapping production, as one of main contents of national fundamental geographic information database. It has been recognized that maintaining them up to date is an important mission of basic work for surveying and mapping. In 2012 State Administration of Surveying, Mapping and Geographic Information organized and implemented a rapid update of the database annually, released a new version annually. This paper presents a review of main results and innovations from national 1:50 000 topographic database updating project.

  5. The human keratinocyte two-dimensional protein database (update 1994): towards an integrated approach to the study of cell proliferation, differentiation and skin diseases

    DEFF Research Database (Denmark)

    Celis, J E; Rasmussen, H H; Olsen, E

    1994-01-01

    The master two-dimensional (2-D) gel database of human keratinocytes currently lists 3087 cellular proteins (2168 isoelectric focusing, IEF; and 919 none-quilibrium pH gradient electrophoresis, NEPHGE), many of which correspond to posttranslational modifications, 890 polypeptides have been...... identified (protein name, organelle components, etc.) using one or a combination of procedures that include (i) comigration with known human proteins, (ii) 2-D gel immunoblotting using specific antibodies (iii) microsequencing of Coomassie Brilliant Blue stained proteins, (iv) mass spectrometry and (v...... in the database. We also report a database of proteins recovered from the medium of noncultured, unfractionated keratinocytes. This database lists 398 polypeptides (309 IEF; 89 NEPHGE) of which 76 have been identified. The aim of the comprehensive databases is to gather, through a systematic study...

  6. Structure, design and statistical programme library of the meteorological database of Potsdam-Institut fuer Klimaforschung; Struktur, Aufbau und statistische Programmbibliothek der meteorologischen Datenbank am Potsdam-Institut fuer Klimaforschung

    Energy Technology Data Exchange (ETDEWEB)

    Oesterle, H.; Glauer, J. [Potsdam-Institut fuer Klimafolgenforschung (PIK), Potsdam (Germany); Denhard, M. [Frankfurt Univ. (Germany). Inst. fuer Meteorologie und Geophysik

    1999-01-01

    The relational database management system (ORACLE) using different client interfaces (browser, SQL, precompiler) is the most important basis for data organization and storage. The creation of a data bank system at PIK includes: Acquisition of meteorological data series for the projects executed at PIK; development of a database structure on the basis of daily values; control, analysis and classification of data into given storage formats; development and application of statistical software. There are currently 20 different types of data sets with daily, monthly and annual data which are functionally interconnected and updated. All data sets are continuously updated. (orig.) [Deutsch] Wesentliche Grundlage der Datenorganisation und -speicherung bildet das relationale Datenbanksystem ORACLE mit den dazugehoerigen Werkzeugen (Browser, SQL- und Precompiler). Die Entwicklung des Datenbanksystems am PIK umfasst folgende Etappen: - Erwerb von meteorologischen Datensaetzen fuer die am Institut laufenden Forschungsvorhaben; - Entwicklung einer Speicherstruktur auf der Basis von Tageswerten; - Kontrolle, Analyse und Einordnung der Daten in die vorgegebenen Speicherformate; - Entwicklung der zur Datennutzung notwendigen statistischen Programmbibliothek. Zur Zeit gibt es 20 verschiedene Typen von Datensaetzen. Sie enthalten taegliche, monatliche und jaehrliche Daten und sind funktional miteinander verbunden. Alle Datensaetze werden kontinuierlich erweitert. (orig.)

  7. License - Gclust Server | 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 ...base Database Description Download License Update History of This Database Site Policy | Contact Us License - Gclust Server | LSDB Archive ...

  8. License - RGP physicalmap | 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 RGP physical...e Database Description Download License Update History of This Database Site Policy | Contact Us License - RGP physicalmap | LSDB Archive ...

  9. Download - DMPD | 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 ...MB) - Downlaod via FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  10. DIGITAL FLOOD INSURANCE RATE MAP DATABASE, COLUMBIA COUNTY, WISCONSIN, USA - MIP Columbia Portion Baraboo River Watershed RiskMap DFIRM Update

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — The Digital Flood Insurance Rate Map (DFIRM) Database depicts flood risk information and supporting data used to develop the risk data. The primary risk;...

  11. DIGITAL FLOOD INSURANCE RATE MAP DATABASE, DODGE COUNTY, WISCONSIN, USA - MIP Dodge Portion Upper Rock River Watershed RiskMap DFIRM Update

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — The Digital Flood Insurance Rate Map (DFIRM) Database depicts flood risk information and supporting data used to develop the risk data. The primary risk;...

  12. The Key Problems towards Quality Control for 1 ∶ 50 000 Topographic Database Updating by Compilation from 1 ∶ 10000 Database%1∶50000地形数据缩编更新质量控制方法研究与实践

    Institute of Scientific and Technical Information of China (English)

    李雪梅; 商瑶玲; 刘剑伟; 王忠祥

    2012-01-01

    1∶50 000地形要素缩编更新是首次在全数字环境下采用地形数据综合技术开展规模化基础地理信息数据更新生产,国家1∶50000数据库更新工程项目部在开展有针对性的研究和试验的基础上,形成了切合工程实际的质量控制技术方法和实施方案.本文对1∶50000地形数据缩编更新质量控制的几个关键问题进行了详细介绍,主要包括缩编更新数据源的质量控制、生产过程中关键环节的质量控制以及更新数据成果入库质量检查与控制.%It is the first time to use topographic map compilation technology from 1 :10000 database to carry out 1 :50 000 fundamental geographic information updating project in full digital environment. Based on the research and experiments by the department of national 1:50 000 database updating project, the technical methods and implementation proposals for quality control are presented. In this article, the key problems about the quality control are analyzed firstly, including the quality control of updating data source, data production procedure and database building. Based on the analysis, the corresponding resolution and implementation results are given.

  13. Open source MySQL Browser for Open Innovation

    Directory of Open Access Journals (Sweden)

    Radu Bucea-Manea-Tonis

    2014-07-01

    Full Text Available Abstract. Our purpose is to cross-compile MySQL driver source code for Linux on Windows architecture using a tool chain in order to build a neutral valid graphic interface on 32 bits. Once achieving this goal we could say that every possible Open source application can be built and run on Windows with maximum efficiency concerning costs and resource. This browser is an example of open innovation because its source code is free for anybody willing to develop new software apps for business and uses only Open source tools.

  14. Download - AcEST | 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 ...t This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - AcEST | LSDB Archive ...

  15. Download - D-HaploDB | 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 ... This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - D-HaploDB | LSDB Archive ...

  16. Download - ClEST | 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 ...bout This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - ClEST | LSDB Archive ...

  17. Download - TMBETA-GENOME | 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 ...o About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - TMBETA-GENOME | LSDB Archive ...

  18. Download - Q-TARO | 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 ...s Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - Q-TARO | LSDB Archive ...

  19. Download - RGP gmap98 | 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 ...tio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - RGP gmap98 | LSDB Archive ...

  20. Download - RGP gmap2000 | 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 ...out This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - RGP gmap2000 | LSDB Archive ...

  1. Taxon (Cyanobacteria) - PGDBj - Ortholog DB | 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 ...Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Taxon (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive ...

  2. Taxon (Viridiplantae) - PGDBj - Ortholog DB | 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 ...Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Taxon (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive ...

  3. 1990 Kansas Land Cover Patterns Update

    Data.gov (United States)

    Kansas Data Access and Support Center — In 2008, an update of the 1990 Kansas Land Cover Patterns (KLCP) database was undertaken. The 1990 KLCP database depicts 10 general land cover classes for the State...

  4. Pembuatan Web Browser D3 TI USU Menggunakan Aplikasi Microsoft Visual Studio 2013

    OpenAIRE

    Lingga, Dedy Firdani

    2014-01-01

    Web browser adalah suatu piranti lunak yang berfungsi mengakses dan menampilkan informasi dari jaringan internet atau World Wide Web. Web browser yang berjalan di system operasi Linux dan berbahasa Indonesia belum banyak dibuat oleh programmer. Untuk mengatasi masalah tersebut, dibuatlah browser berbahasa Indonesia dengan menggunakan bahasa pemrograman Kylix yang berjalan pada system operasi Linux, Kylix merupakan bahasa pemrograman yang mirip dengan bahasa pemrograman Delphi yang berjalan pa...

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

    Lifescience Database Archive (English)

    Full Text Available s database, under the license, as long as you comply with the following conditions: You must attribute this ...Trypanosomes Database License License to Use This Database Last updated : 2014/02/04 You may use this databa...ense terms regarding the use of this database and the requirements you must follo...e . With regard to this database, you are licensed to: freely access part or whole of this database, and acq...whole of the data from this database under the license. You need to contact the Licensor shown below to requ

  6. PIXASTIC: STEGANOGRAPHY BASED ANTI-PHISHING BROWSER PLUG-IN

    Directory of Open Access Journals (Sweden)

    P.Thiyagarajan

    2012-04-01

    Full Text Available In spite of existence of many standard security mechanisms for ensuring secure e- Commerce business, users still fall prey for onlin e attacks. One such simple but powerful attack is ‘Phishing’. Phishing is the most alarming threat in the e-Commerce world and effective anti-phishing technique is the need of the hour. This paper focuses on a novel anti-phishing browser plug-in which uses information hiding technique - Steganography. A Robust Message based Image Steganography (RMIS algorithm has been proposed. The same has been incorporated in the form of a browser plug-in (safari called Pixastic. Pixastic is tested in an online banking scenario and it is compared with other well-known anti-phishing plug-in methods in practice. Various parameters such as robustness, usability and its behavior on various attacks have been analysed. From experimental results, it is ev ident that our method Pixastic performs well compared to other anti-phishing plug-ins.

  7. `SAMP'ling Your Browser for the Semantic Web

    Science.gov (United States)

    Derriere, S.; Boch, T.

    2010-12-01

    SAMP, the Simple Application Messaging Protocol, is one of the successes of the Virtual Observatory (VO). By allowing communication between various applications, it enables easy data sharing, and facilitates data exploration, taking advantage of each application’s functionalities. SAMP can also be used to allow web browsers to interact with the VO. We will show for instance how Firefox can be complemented with a plugin allowing the user to send messages from any web page to existing VO applications. But there is more to be done in the context of the Semantic Web. Semantic annotations can be included in web pages using microformats or RDFa (Resource Description Framework in attributes). We will demonstrate how to take advantage of this semantic markup using SAMP. Annotated web pages can be consumed by a browser plugin to build dedicated SAMP contextual messages (e.g. pointing an application to sky coordinates present in the web page). This mechanism provides a generic yet powerful way to interact between, for example, an astronomical web portal and other VO tools.

  8. MLitB: machine learning in the browser

    Directory of Open Access Journals (Sweden)

    Edward Meeds

    2015-07-01

    Full Text Available With few exceptions, the field of Machine Learning (ML research has largely ignored the browser as a computational engine. Beyond an educational resource for ML, the browser has vast potential to not only improve the state-of-the-art in ML research, but also, inexpensively and on a massive scale, to bring sophisticated ML learning and prediction to the public at large. This paper introduces MLitB, a prototype ML framework written entirely in Javascript, capable of performing large-scale distributed computing with heterogeneous classes of devices. The development of MLitB has been driven by several underlying objectives whose aim is to make ML learning and usage ubiquitous (by using ubiquitous compute devices, cheap and effortlessly distributed, and collaborative. This is achieved by allowing every internet capable device to run training algorithms and predictive models with no software installation and by saving models in universally readable formats. Our prototype library is capable of training deep neural networks with synchronized, distributed stochastic gradient descent. MLitB offers several important opportunities for novel ML research, including: development of distributed learning algorithms, advancement of web GPU algorithms, novel field and mobile applications, privacy preserving computing, and green grid-computing. MLitB is available as open source software.

  9. Nomenclature and databases for the surgical treatment of congenital cardiac disease - an updated primer and an analysis of opportunities for improvement

    NARCIS (Netherlands)

    Jacobs, Jeffrey Phillip; Jacobs, Marshall Lewis; Mavroudis, Constantine; Backer, Carl Lewis; Lacour-Gayet, Francois G.; Tchervenkov, Christo I.; Franklin, Rodney C. G.; Beland, Marie J.; Jenkins, Kathy J.; Walters, Hal; Bacha, Emile A.; Maruszewski, Bohdan; Kurosawa, Hiromi; Clarke, David Robinson; Gaynor, J. William; Spray, Thomas L.; Stellin, Giovanni; Ebels, Tjark; Krogmann, Otto N.; Aiello, Vera D.; Colan, Steven D.; Weinberg, Paul; Giroud, Jorge M.; Everett, Allen; Wernovsky, Gil; Elliott, Martin J.; Edwards, Fred H.

    2008-01-01

    This review discusses the historical aspects, current state of the art, and potential future advances in the areas of nomenclature and databases for the analysis Of Outcomes of treatments for patients with congenitally malformed hearts. We will consider the current state of analysis of outcomes, lay

  10. The master two-dimensional gel database of human AMA cell proteins: towards linking protein and genome sequence and mapping information (update 1991)

    DEFF Research Database (Denmark)

    Celis, J E; Leffers, H; Rasmussen, H H;

    1991-01-01

    The master two-dimensional gel database of human AMA cells currently lists 3801 cellular and secreted proteins, of which 371 cellular polypeptides (306 IEF; 65 NEPHGE) were added to the master images during the last 10 months. These include: (i) very basic and acidic proteins that do not focus un...

  11. Design and Implementation of MIS System Based on Browser/Server%基于Browser/Server的MIS系统的设计与实现

    Institute of Scientific and Technical Information of China (English)

    王永会; 宋晓宇; 郭玢; 栾方军

    2001-01-01

    随着Internet技术的发展,计算机网络的应用越来越广泛,应用程序的开发也逐渐由Client/Server方式向Browser/Server方式转移.本文讨论了当前正在迅猛发展的Browser/Server模式的基本原理,并通过实例介绍了在Windows NT Web服务器上构造基于Browser/Server的数据库管理系统,以及利用ASP和ADO技术对数据库的访问方法.

  12. Updating Fingerprint Database by Crowdsourcing for Wi-Fi Indoor Localization%利用众包更新Wi-Fi室内定位指纹库的方法研究∗

    Institute of Scientific and Technical Information of China (English)

    李燕君; 徐凯锋; 邵剑集

    2014-01-01

    Wi-Fi fingerprint localization has been well accepted to solve the indoor localization problem,while the most important part in this method is the construction and maintenance of the fingerprint database. A timely update of the fingerprint database is required due to the fluctuation of the received Wi-Fi signal strength. However,having professionals updating the fingerprint database is costly in terms of time and effort. In this paper,a crowdsourcing approach is proposed where the users themselves can evaluate and correct the localization result,thus training and using the localization system at the same time. Particularly a clustering based error detection method is adopted to detect the erroneous input location data,which can effectively avoid the contamination of the fingerprint database. Finally an indoor localization system is developed and practical experiments in real indoor environment show that the proposed approach achieves satisfying localization accuracy over a long time.%Wi-Fi定位是目前较为主流的室内定位方法,而位置指纹库的建立和维护对Wi-Fi定位至关重要。 Wi-Fi信号时变性强要求指纹库及时更新。针对由专业人员更新指纹库的人力耗费问题,提出利用众包更新指纹库的方法,允许用户对定位结果进行评价和修正,使得用户在享受定位结果的同时参与到指纹库的维护更新中,特别针对用户的错误修正提出了基于聚类的错误检测方法,能有效避免指纹库被错误指纹污染。开发了室内定位系统,通过在真实室内环境的实验验证了本文提出的方法可以长时间保持较高的定位性能。

  13. Updating model for land use database based on multi-layer perceptron network and its application%基于多层感知器神经网络的土地利用数据库更新模型及应用

    Institute of Scientific and Technical Information of China (English)

    纪亚洲; 顾和和; 李保杰

    2015-01-01

    针对土地利用数据库更新规则复杂、不同更新类型与更新规则自动匹配困难等问题,该文提出并构建了一种基于多层感知器神经网络的土地利用要素自适应更新模型。该模型将土地利用要素的每个变更类型判断及更新行为判断过程均设计成一个神经元,同类神经元组织成一个网络层,所有网络层采用全连接方式构成一个多层感知更新策略判断模型。该模型可以自动完成变更类型与更新规则的正确快速匹配,且可根据更新规则的变化,灵活改变知识库并产生新的推理机。试验表明:该模型明显减少了人工交互环节,综合更新效率较各基地软件可以提高30%左右,一次性更新正确率可以提高5个百分点以上,研究成果可为土地利用数据库的高效自动更新提供一整套新的解决方案。%Land use database is the basis for the government departments at all levels to regulate land use, and the currency and quality of land use database directly determine the level and effect of land supervision. However, at present, the land use database updating technology and means are not advanced enough yet. The currency of the land use database significantly lags our economic development level. In light of the automatic matching complexity of change type and update strategy, artificial neural network is introduced into update strategy judgment field. According to the structure and main updating content, from the horizontal, land use database adaptive updating model is divided into land class polygon, linear feature and isolated feature. Then, in accordance with annual update implementation program of land use database and current updating progress, methods and habits, from the vertical, the above-mentioned updating model is divided into spatial analysis layer, input layer, change type judgment layer, spatial update strategy judgment layer and attribute update strategy judgment

  14. Browser-based Analysis of Web Framework Applications

    CERN Document Server

    Kersten, Benjamin; 10.4204/EPTCS.35.5

    2010-01-01

    Although web applications evolved to mature solutions providing sophisticated user experience, they also became complex for the same reason. Complexity primarily affects the server-side generation of dynamic pages as they are aggregated from multiple sources and as there are lots of possible processing paths depending on parameters. Browser-based tests are an adequate instrument to detect errors within generated web pages considering the server-side process and path complexity a black box. However, these tests do not detect the cause of an error which has to be located manually instead. This paper proposes to generate metadata on the paths and parts involved during server-side processing to facilitate backtracking origins of detected errors at development time. While there are several possible points of interest to observe for backtracking, this paper focuses user interface components of web frameworks.

  15. Implementing a Web Browser with Phishing Detection Techniques

    CERN Document Server

    Jain, Aanchal

    2011-01-01

    Phishing is the combination of social engineering and technical exploits designed to convince a victim to provide personal information, usually for the monetary gain of the attacker. Phishing has become the most popular practice among the criminals of the Web. Phishing attacks are becoming more frequent and sophisticated. The impact of phishing is drastic and significant since it can involve the risk of identity theft and financial losses. Phishing scams have become a problem for online banking and e-commerce users. In this paper we propose a novel approach to detect phishing attacks. We implemented a prototype web browser which can be used as an agent and processes each arriving email for phishing attacks. Using email data collected over a period time we demonstrate data that our approach is able to detect more phishing attacks than existing schemes.

  16. Web Pages Content Analysis Using Browser-Based Volunteer Computing

    Directory of Open Access Journals (Sweden)

    Wojciech Turek

    2013-01-01

    Full Text Available Existing solutions to the problem of finding valuable information on the Websuffers from several limitations like simplified query languages, out-of-date in-formation or arbitrary results sorting. In this paper a different approach to thisproblem is described. It is based on the idea of distributed processing of Webpages content. To provide sufficient performance, the idea of browser-basedvolunteer computing is utilized, which requires the implementation of text pro-cessing algorithms in JavaScript. In this paper the architecture of Web pagescontent analysis system is presented, details concerning the implementation ofthe system and the text processing algorithms are described and test resultsare provided.

  17. Gesture Interaction Browser-Based 3D Molecular Viewer.

    Science.gov (United States)

    Virag, Ioan; Stoicu-Tivadar, Lăcrămioara; Crişan-Vida, Mihaela

    2016-01-01

    The paper presents an open source system that allows the user to interact with a 3D molecular viewer using associated hand gestures for rotating, scaling and panning the rendered model. The novelty of this approach is that the entire application is browser-based and doesn't require installation of third party plug-ins or additional software components in order to visualize the supported chemical file formats. This kind of solution is suitable for instruction of users in less IT oriented environments, like medicine or chemistry. For rendering various molecular geometries our team used GLmol (a molecular viewer written in JavaScript). The interaction with the 3D models is made with Leap Motion controller that allows real-time tracking of the user's hand gestures. The first results confirmed that the resulting application leads to a better way of understanding various types of translational bioinformatics related problems in both biomedical research and education.

  18. A Hybrid Web Browser Architecture for Mobile Devices

    Directory of Open Access Journals (Sweden)

    CHO, J.

    2014-08-01

    Full Text Available Web browsing on mobile networks is slow in comparison to wired or Wi-Fi networks. Particularly, the connection establishment phase including DNS lookups and TCP handshakes takes a long time on mobile networks due to its long round-trip latency. In this paper, we propose a novel web browser architecture that aims to improve mobile web browsing performance. Our approach delegates the connection establishment and HTTP header field delivery tasks to a dedicated proxy server located at the joint point between the WAN and mobile network. Since the traffic for the connection establishment and HTTP header fields delivery passes only through the WAN between the proxy and web servers, our approach significantly reduces both the number and size of packets on the mobile network. Our evaluation showed that the proposed scheme reduces the number of mobile network packets by up to 42% and, consequently, the average page loading time is shortened by up to 52%.

  19. Rice-Map: a new-generation rice genome browser

    Directory of Open Access Journals (Sweden)

    Luo Jingchu

    2011-03-01

    Full Text Available Abstract Background The concurrent release of rice genome sequences for two subspecies (Oryza sativa L. ssp. japonica and Oryza sativa L. ssp. indica facilitates rice studies at the whole genome level. Since the advent of high-throughput analysis, huge amounts of functional genomics data have been delivered rapidly, making an integrated online genome browser indispensable for scientists to visualize and analyze these data. Based on next-generation web technologies and high-throughput experimental data, we have developed Rice-Map, a novel genome browser for researchers to navigate, analyze and annotate rice genome interactively. Description More than one hundred annotation tracks (81 for japonica and 82 for indica have been compiled and loaded into Rice-Map. These pre-computed annotations cover gene models, transcript evidences, expression profiling, epigenetic modifications, inter-species and intra-species homologies, genetic markers and other genomic features. In addition to these pre-computed tracks, registered users can interactively add comments and research notes to Rice-Map as User-Defined Annotation entries. By smoothly scrolling, dragging and zooming, users can browse various genomic features simultaneously at multiple scales. On-the-fly analysis for selected entries could be performed through dedicated bioinformatic analysis platforms such as WebLab and Galaxy. Furthermore, a BioMart-powered data warehouse "Rice Mart" is offered for advanced users to fetch bulk datasets based on complex criteria. Conclusions Rice-Map delivers abundant up-to-date japonica and indica annotations, providing a valuable resource for both computational and bench biologists. Rice-Map is publicly accessible at http://www.ricemap.org/, with all data available for free downloading.

  20. Integrating heterogeneous open-source software into web browsers using AMICO:WEB

    NARCIS (Netherlands)

    Obrenovic, Z.; Ossenbruggen, J.R. van

    2007-01-01

    A web browser provides a uniform user interface to different types of information. Making this interface universally accessible and more interactive is a long term goal still far from being achieved. Universally accessible browsers require novel interaction modalities and additional functionalities,

  1. Lexicon Sextant: Modeling a Mnemonic System for Customizable Browser Information Organization and Management

    Science.gov (United States)

    Shen, Siu-Tsen

    2016-01-01

    This paper presents an ongoing study of the development of a customizable web browser information organization and management system, which the author has named Lexicon Sextant (LS). LS is a user friendly, graphical web based add-on to the latest generation of web browsers, such as Google Chrome, making it easier and more intuitive to store and…

  2. Browser Wars: Netscape Communicator 4.01 vs. Microsoft Internet Explorer 4.0.

    Science.gov (United States)

    McDermott, Irene E.

    1997-01-01

    Examines what searchers want in an Internet browser. Compares the old versions of two browsers (Netscape Navigator and Microsoft's Internet Explorer) with their new versions to see what they have to offer the professional searcher. Also looks at some of the larger issues invoked by the competition between the two products. (AEF)

  3. AMDIS and CHART update. 1

    Energy Technology Data Exchange (ETDEWEB)

    Murakami, I.; Kato, T. [National Inst. for Fusion Science, Toki, Gifu (Japan); Igarashi, A. [Miyazaki Univ., Miyazaki (JP)] [and others

    2002-10-01

    A working group for updating atomic and molecular collision data in the NIFS database AMDIS (electron scattering) and CHART (ion scattering) has been organized. This group has searched and reviewed literatures for collecting relevant atomic data with are to be included into the database. This is a summary report of the activities of this working group. (author)

  4. Trajectory Browser: An online tool for interplanetary trajectory analysis and visualization

    Science.gov (United States)

    Foster, C.

    The Trajectory Browser is a web-based tool developed at the NASA Ames Research Center for finding preliminary trajectories to planetary bodies and for providing relevant launch date, time-of-flight and Δ V requirements. The site hosts a database of transfer trajectories from Earth to planets and small-bodies for various types of missions such as rendezvous, sample return or flybys. A search engine allows the user to find trajectories meeting desired constraints on the launch window, mission duration and Δ V capability, while a trajectory viewer tool allows the visualization of the heliocentric trajectory and the detailed mission itinerary. The anticipated user base of this tool consists primarily of scientists and engineers designing interplanetary missions in the context of pre-phase A studies, particularly for performing accessibility surveys to large populations of small-bodies. The educational potential of the website is also recognized for academia and the public with regards to trajectory design, a field that has generally been poorly understood by the public. The website is currently hosted on NASA-internal URL http://trajbrowser.arc.nasa.gov/ with plans for a public release in early 2013.

  5. An updated validation of Promega's PowerPlex 16 System: high throughput databasing under reduced PCR volume conditions on Applied Biosystem's 96 capillary 3730xl DNA Analyzer.

    Science.gov (United States)

    Spathis, Rita; Lum, J Koji

    2008-11-01

    The PowerPlex 16 System from Promega Corporation allows single tube multiplex amplification of sixteen short tandem repeat (STR) loci including all 13 core combined DNA index system STRs. This report presents an updated validation of the PowerPlex 16 System on Applied Biosystem's 96 capillary 3730xl DNA Analyzer. The validation protocol developed in our laboratory allows for the analysis of 1536 loci (96 x 16) in c. 50 min. We have further optimized the assay by decreasing the reaction volume to one-quarter that recommended by the manufacturer thereby substantially reducing the total cost per sample without compromising reproducibility or specificity. This reduction in reaction volume has the ancillary benefit of dramatically increasing the sensitivity of the assay allowing for accurate analysis of lower quantities of DNA. Due to its substantially increased throughput capability, this extended validation of the PowerPlex 16 System should be useful in reducing the backlog of unanalyzed DNA samples currently facing public DNA forensic laboratories.

  6. MTGD: The Medicago truncatula genome database.

    Science.gov (United States)

    Krishnakumar, Vivek; Kim, Maria; Rosen, Benjamin D; Karamycheva, Svetlana; Bidwell, Shelby L; Tang, Haibao; Town, Christopher D

    2015-01-01

    Medicago truncatula, a close relative of alfalfa (Medicago sativa), is a model legume used for studying symbiotic nitrogen fixation, mycorrhizal interactions and legume genomics. J. Craig Venter Institute (JCVI; formerly TIGR) has been involved in M. truncatula genome sequencing and annotation since 2002 and has maintained a web-based resource providing data to the community for this entire period. The website (http://www.MedicagoGenome.org) has seen major updates in the past year, where it currently hosts the latest version of the genome (Mt4.0), associated data and legacy project information, presented to users via a rich set of open-source tools. A JBrowse-based genome browser interface exposes tracks for visualization. Mutant gene symbols originally assembled and curated by the Frugoli lab are now hosted at JCVI and tie into our community annotation interface, Medicago EuCAP (to be integrated soon with our implementation of WebApollo). Literature pertinent to M. truncatula is indexed and made searchable via the Textpresso search engine. The site also implements MedicMine, an instance of InterMine that offers interconnectivity with other plant 'mines' such as ThaleMine and PhytoMine, and other model organism databases (MODs). In addition to these new features, we continue to provide keyword- and locus identifier-based searches served via a Chado-backed Tripal Instance, a BLAST search interface and bulk downloads of data sets from the iPlant Data Store (iDS). Finally, we maintain an E-mail helpdesk, facilitated by a JIRA issue tracking system, where we receive and respond to questions about the website and requests for specific data sets from the community.

  7. APD: the Antimicrobial Peptide Database.

    Science.gov (United States)

    Wang, Zhe; Wang, Guangshun

    2004-01-01

    An antimicrobial peptide database (APD) has been established based on an extensive literature search. It contains detailed information for 525 peptides (498 antibacterial, 155 antifungal, 28 antiviral and 18 antitumor). APD provides interactive interfaces for peptide query, prediction and design. It also provides statistical data for a select group of or all the peptides in the database. Peptide information can be searched using keywords such as peptide name, ID, length, net charge, hydrophobic percentage, key residue, unique sequence motif, structure and activity. APD is a useful tool for studying the structure-function relationship of antimicrobial peptides. The database can be accessed via a web-based browser at the URL: http://aps.unmc.edu/AP/main.html.

  8. Rice TOGO Browser: A platform to retrieve integrated information on rice functional and applied genomics.

    Science.gov (United States)

    Nagamura, Yoshiaki; Antonio, Baltazar A; Sato, Yutaka; Miyao, Akio; Namiki, Nobukazu; Yonemaru, Jun-ichi; Minami, Hiroshi; Kamatsuki, Kaori; Shimura, Kan; Shimizu, Yuji; Hirochika, Hirohiko

    2011-02-01

    The Rice TOGO Browser is an online public resource designed to facilitate integration and visualization of mapping data of bacterial artificial chromosome (BAC)/P1-derived artificial chromosome (PAC) clones, genes, restriction fragment length polymorphism (RFLP)/simple sequence repeat (SSR) markers and phenotype data represented as quantitative trait loci (QTLs) onto the genome sequence, and to provide a platform for more efficient utilization of genome information from the point of view of applied genomics as well as functional genomics. Three search options, namely keyword search, region search and trait search, generate various types of data in a user-friendly interface with three distinct viewers, a chromosome viewer, an integrated map viewer and a sequence viewer, thereby providing the opportunity to view the position of genes and/or QTLs at the chromosomal level and to retrieve any sequence information in a user-defined genome region. Furthermore, the gene list, marker list and genome sequence in a specified region delineated by RFLP/SSR markers and any sequences designed as primers can be viewed and downloaded to support forward genetics approaches. An additional feature of this database is the graphical viewer for BLAST search to reveal information not only for regions with significant sequence similarity but also for regions adjacent to those with similarity but with no hits between sequences. An easy to use and intuitive user interface can help a wide range of users in retrieving integrated mapping information including agronomically important traits on the rice genome sequence. The database can be accessed at http://agri-trait.dna.affrc.go.jp/.

  9. OGEE v2: an update of the online gene essentiality database with special focus on differentially essential genes in human cancer cell lines.

    Science.gov (United States)

    Chen, Wei-Hua; Lu, Guanting; Chen, Xiao; Zhao, Xing-Ming; Bork, Peer

    2017-01-04

    OGEE is an Online GEne Essentiality database. To enhance our understanding of the essentiality of genes, in OGEE we collected experimentally tested essential and non-essential genes, as well as associated gene properties known to contribute to gene essentiality. We focus on large-scale experiments, and complement our data with text-mining results. We organized tested genes into data sets according to their sources, and tagged those with variable essentiality statuses across data sets as conditionally essential genes, intending to highlight the complex interplay between gene functions and environments/experimental perturbations. Developments since the last public release include increased numbers of species and gene essentiality data sets, inclusion of non-coding essential sequences and genes with intermediate essentiality statuses. In addition, we included 16 essentiality data sets from cancer cell lines, corresponding to 9 human cancers; with OGEE, users can easily explore the shared and differentially essential genes within and between cancer types. These genes, especially those derived from cell lines that are similar to tumor samples, could reveal the oncogenic drivers, paralogous gene expression pattern and chromosomal structure of the corresponding cancer types, and can be further screened to identify targets for cancer therapy and/or new drug development. OGEE is freely available at http://ogee.medgenius.info.

  10. OGEE v2: an update of the online gene essentiality database with special focus on differentially essential genes in human cancer cell lines

    Science.gov (United States)

    Chen, Wei-Hua; Lu, Guanting; Chen, Xiao; Zhao, Xing-Ming; Bork, Peer

    2017-01-01

    OGEE is an Online GEne Essentiality database. To enhance our understanding of the essentiality of genes, in OGEE we collected experimentally tested essential and non-essential genes, as well as associated gene properties known to contribute to gene essentiality. We focus on large-scale experiments, and complement our data with text-mining results. We organized tested genes into data sets according to their sources, and tagged those with variable essentiality statuses across data sets as conditionally essential genes, intending to highlight the complex interplay between gene functions and environments/experimental perturbations. Developments since the last public release include increased numbers of species and gene essentiality data sets, inclusion of non-coding essential sequences and genes with intermediate essentiality statuses. In addition, we included 16 essentiality data sets from cancer cell lines, corresponding to 9 human cancers; with OGEE, users can easily explore the shared and differentially essential genes within and between cancer types. These genes, especially those derived from cell lines that are similar to tumor samples, could reveal the oncogenic drivers, paralogous gene expression pattern and chromosomal structure of the corresponding cancer types, and can be further screened to identify targets for cancer therapy and/or new drug development. OGEE is freely available at http://ogee.medgenius.info. PMID:27799467

  11. Dietary shifts: do grazers become browsers in the Thicket Biome?

    Directory of Open Access Journals (Sweden)

    M. Landman

    2001-07-01

    Full Text Available The diet of buffalo (Syncerus coffer and Burchell's zebra (Equus burchelli was investigated in the Addo Elephant National Park to test the hypothesis that the shortage of grass associated with thicket vegetation results in grazers increasing the proportion of dicotyledonous plant species in their diet. Diet composition, estimated from faecal analysis, indicated that 19 and 21 plant species were identified in the faeces of zebra and buffalo, respectively. Buffalo proved to have a higher percentage dicotyledonous (28.1 vs. 8.5 and lower percentage monocotyledonous (71.9 vs. 91.5 species in their diet than zebra. The grass Eragrostis curvula was found to be the dominant food item for both buffalo (18 of diet and zebra (39 of diet during the period of study. The present study indicated that a great proportion of the buffalo diet does in fact consist of grass, thereby refuting the perception that the Addo buffalo are primarily browsers. Both buffalo and zebra are specialised grazers and unsuited to a diet of browse. The probability of dietary shift by these grazers in the grass limited thicket vegetation is therefore challenged.

  12. The dbGaP data browser: a new tool for browsing dbGaP controlled-access genomic data

    Science.gov (United States)

    Wong, Kira M.; Langlais, Kristofor; Tobias, Geoffrey S.; Fletcher-Hoppe, Colette; Krasnewich, Donna; Leeds, Hilary S.; Rodriguez, Laura Lyman; Godynskiy, Georgy; Schneider, Valerie A.; Ramos, Erin M.; Sherry, Stephen T.

    2017-01-01

    The database of Genotypes and Phenotypes (dbGaP) Data Browser (https://www.ncbi.nlm.nih.gov/gap/ddb/) was developed in response to requests from the scientific community for a resource that enable view-only access to summary-level information and individual-level genotype and sequence data associated with phenotypic features maintained in the controlled-access tier of dbGaP. Until now, the dbGaP controlled-access environment required investigators to submit a data access request, wait for Data Access Committee review, download each data set and locally examine them for potentially relevant information. Existing unrestricted-access genomic data browsing resources (e.g. http://evs.gs.washington.edu/EVS/, http://exac.broadinstitute.org/) provide only summary statistics or aggregate allele frequencies. The dbGaP Data Browser serves as a third solution, providing researchers with view-only access to a compilation of individual-level data from general research use (GRU) studies through a simplified controlled-access process. The National Institutes of Health (NIH) will continue to improve the Browser in response to user feedback and believes that this tool may decrease unnecessary download requests, while still facilitating responsible genomic data-sharing. PMID:27899644

  13. A graphics pipeline for directtly rendering 3D scenes on web browsers

    OpenAIRE

    Pinto, Edgar Marchiel

    2009-01-01

    In this dissertation we propose a graphics pipeline, in the form of aWeb3D graphics library, for directly rendering 3D scenes on web browsers. This open sourceWeb3D graphics library is called Glypher3D. It is entirely written in JavaScript (together with the HTML5 canvas element) and aims at enabling the creation, manipulation and rendering of 3D contents within a browser, without the need of installing any type of web browser plug-ins or add-ons (i.e. it does not take advantag...

  14. HOME USERS SECURITY AND THE WEB BROWSER INBUILT SETTINGS, FRAMEWORK TO SETUP IT AUTOMATICALLY

    OpenAIRE

    Mohammed Serrhini; Abdelazziz Ait Moussa

    2013-01-01

    We are living in the electronic age where electronic transactions such as e-mail, e-banking, e-commerce and e-learning becoming more and more prominent. To access online for this services, the web browser is todayâs almost unique software used. These daysâ hackers know that browsers are installed into all computers and can be used to compromise a machine by distributing malware via malicious or hacked websites. Also these sites use JavaScript to manipulate browsers and can drive user system t...

  15. Prototype of Multifunctional Full-text Library in the Architecture Web-browser / Web-server / SQL-server

    Science.gov (United States)

    Lyapin, Sergey; Kukovyakin, Alexey

    Within the framework of the research program "Textaurus" an operational prototype of multifunctional library T-Libra v.4.1. has been created which makes it possible to carry out flexible parametrizable search within a full-text database. The information system is realized in the architecture Web-browser / Web-server / SQL-server. This allows to achieve an optimal combination of universality and efficiency of text processing, on the one hand, and convenience and minimization of expenses for an end user (due to applying of a standard Web-browser as a client application), on the other one. The following principles underlie the information system: a) multifunctionality, b) intelligence, c) multilingual primary texts and full-text searching, d) development of digital library (DL) by a user ("administrative client"), e) multi-platform working. A "library of concepts", i.e. a block of functional models of semantic (concept-oriented) searching, as well as a subsystem of parametrizable queries to a full-text database, which is closely connected with the "library", serve as a conceptual basis of multifunctionality and "intelligence" of the DL T-Libra v.4.1. An author's paragraph is a unit of full-text searching in the suggested technology. At that, the "logic" of an educational / scientific topic or a problem can be built in a multilevel flexible structure of a query and the "library of concepts", replenishable by the developers and experts. About 10 queries of various level of complexity and conceptuality are realized in the suggested version of the information system: from simple terminological searching (taking into account lexical and grammatical paradigms of Russian) to several kinds of explication of terminological fields and adjustable two-parameter thematic searching (a [set of terms] and a [distance between terms] within the limits of an author's paragraph are such parameters correspondingly).

  16. 一个基干Browser/Server体系结构的旅游服务系统%Tour service system base on Browser/Server system architecture

    Institute of Scientific and Technical Information of China (English)

    赵洁

    2002-01-01

    Internet的出现和发展对旅游行业带来了巨大的挑战和机遇.本文主要阐述了基于Browser/Server的旅游服务系统的主要实现技术,并以基于Browser/Server的旅游服务系统TSS为例,重点分析了系统功能、网络结构,软件结构和关键技术.

  17. A Policy Based Approach for the Management of Web Browser Resources to Prevent Anonymity Attacks in Tor

    Science.gov (United States)

    Navarro-Arribas, Guillermo; Garcia-Alfaro, Joaquin

    Web browsers are becoming the universal interface to reach applications and services related with these systems. Different browsing contexts may be required in order to reach them, e.g., use of VPN tunnels, corporate proxies, anonymisers, etc. By browsing context we mean how the user browsers the Web, including mainly the concrete configuration of its browser. When the context of the browser changes, its security requirements also change. In this work, we present the use of authorisation policies to automatise the process of controlling the resources of a Web browser when its context changes. The objective of our proposal is oriented towards easing the adaptation to the security requirements of the new context and enforce them in the browser without the need for user intervention. We present a concrete application of our work as a plug-in for the adaption of security requirements in Mozilla/Firefox browser when a context of anonymous navigation through the Tor network is enabled.

  18. CERESVis: A QC Tool for CERES that Leverages Browser Technology for Data Validation

    Science.gov (United States)

    Chu, C.; Sun-Mack, S.; Heckert, E.; Chen, Y.; Doelling, D.

    2015-12-01

    In this poster, we are going to present three user interfaces that CERES team uses to validate pixel-level data. Besides our home grown tools, we will aslo present the browser technology that we use to provide interactive interfaces, such as jquery, HighCharts and Google Earth. We pass data to the users' browsers and use the browsers to do some simple computations. The three user interfaces are: Thumbnails -- it displays hundrends images to allow users to browse 24-hour data files in few seconds. Multiple-synchronized cursors -- it allows users to compare multiple images side by side. Bounding Boxes and Histograms -- it allows users to draw multiple bounding boxes on an image and the browser computes/display the histograms.

  19. ANNIS: a linguistic database for exploring information structure

    OpenAIRE

    Dipper, Stefanie; Götze, Michael; Stede, Manfred; Wegst, Tillmann

    2008-01-01

    In this paper, we discuss the design and implementation of our first version of the database "ANNIS" (ANNotation of Information Structure). For research based on empirical data, ANNIS provides a uniform environment for storing this data together with its linguistic annotations. A central database promotes standardized annotation, which facilitates interpretation and comparison of the data. ANNIS is used through a standard web browser and offers tier-based visualization of data and annotations...

  20. License - Dicty_cDB | 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 ...base Database Description Download License Update History of This Database Site Policy | Contact Us License - Dicty_cDB | LSDB Archive ...

  1. Download - BodyParts3D | 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 ...se Database Description Download License Update History of This Database Site Policy | Contact Us Download - BodyParts3D | LSDB Archive ...

  2. Download - tRNADB-CE | 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 ...abase Database Description Download License Update History of This Database Site Policy | Contact Us Download - tRNADB-CE | LSDB Archive ...

  3. License - RGP gmap2000 | 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 ... Database Description Download License Update History of This Database Site Policy | Contact Us License - RGP gmap2000 | LSDB Archive ...

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

    DEFF Research Database (Denmark)

    Bonde, Lars Ole

    2015-01-01

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

  5. Transcriptome data - Air-drying stress - DGBY | 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 ...thod - Number of data entries - - Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  6. cDNA library Table - KAIKOcDNA | 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 ...f clones Note Note Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  7. GO classification GenBank - KOME | 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 ...r of the GO term Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  8. GO classification Arabidopsis - KOME | 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 ...r of the GO term Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  9. Taxonomy Icon Images (PNG format) - Taxonomy Icon | 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 ...se Database Description Download License Update History of This Database Site Policy | Contact Us Taxonomy Icon Images (PNG format) - Taxonomy Icon | LSDB Archive ...

  10. A browser-based tool for conversion between Fortran NAMELIST and XML/HTML

    Science.gov (United States)

    Naito, O.

    A browser-based tool for conversion between Fortran NAMELIST and XML/HTML is presented. It runs on an HTML5 compliant browser and generates reusable XML files to aid interoperability. It also provides a graphical interface for editing and annotating variables in NAMELIST, hence serves as a primitive code documentation environment. Although the tool is not comprehensive, it could be viewed as a test bed for integrating legacy codes into modern systems.

  11. Testing of a novel web browser interface for the Chinese market

    OpenAIRE

    Shen, Siu-Tsen; Prior, Stephen D.; Chen, Kuen-Meau

    2009-01-01

    This paper compares the perspicacity, appropriateness and preference of web browser icons from leading software providers with those of a culture-specific design. This online study was conducted in Taiwan and involved 103 participants, who were given three sets of web browser icons to review, namely Microsoft Internet Explorer, Macintosh Safari, and culturally specific icons created using the Culture-Centred Design methodology. The findings of the study show that all three sets have generally...

  12. Experiments list - DGBY | 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 DGBY Experiments... list Data detail Data name Experiments list Description of data contents Published experime...This Database Database Description Download License Update History of This Database Site Policy | Contact Us Experiments list - DGBY | LSDB Archive ...

  13. Download - RGP gmap | 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 ... FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - RGP gmap | LSDB Archive ...

  14. Download - Gclust Server | 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 ...oomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - Gclust Server | LSDB Archive ...

  15. Reference - PLACE | 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 ... File URL: ftp://ftp.biosciencedbc.jp/archive/place/LATEST/place_reference.zip Fi... Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Reference - PLACE | LSDB Archive ...

  16. Drug - KEGG MEDICUS | 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 ...ftp://ftp.biosciencedbc.jp/archive/kegg-medicus/LATEST/kegg_medicus_drug_en.zip File size: 5.2 MB Simple sea...bout This Database Database Description Download License Update History of This Database Site Policy | Contact Us Drug - KEGG MEDICUS | LSDB Archive ...

  17. Comment - Taxonomy Icon | 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 ...p File URL: ftp://ftp.biosciencedbc.jp/archive/taxonomy-icon/LATEST/taxonomy_icon... Database Database Description Download License Update History of This Database Site Policy | Contact Us Comment - Taxonomy Icon | LSDB Archive ...

  18. Download - DGBY | 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 ...od via FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - DGBY | LSDB Archive ...

  19. OPS index - KOME | 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 ...ile URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_ops_index.zip File s...la SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us OPS index - KOME | LSDB Archive ...

  20. Images - RPSD | 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 ...//ftp.biosciencedbc.jp/archive/rpsd/LATEST/rpsd_images.zip File size: 18.3 MB Sim...a SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Images - RPSD | LSDB Archive ...

  1. Trimming information - KOME | 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 ...ation.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_trimming_information.zip File size: ...SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Trimming information - KOME | LSDB Archive ...

  2. Main - PLACE | 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 ...URL: ftp://ftp.biosciencedbc.jp/archive/place/LATEST/place_main.zip File size: 48...97) Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Main - PLACE | LSDB Archive ...

  3. License - Plabrain DB | 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 ...me and URL of this database (http://dbarchive.lifesciencedb.jp/english/en/plabrain-db/desc.html) in the arti...se Database Description Download License Update History of This Database Site Policy | Contact Us License - Plabrain DB | LSDB Archive ...

  4. Envirion - KEGG MEDICUS | 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 ... file File name: kegg_medicus_environ_en.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kegg-medicus/LATES...oomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Envirion - KEGG MEDICUS | LSDB Archive ...

  5. Performance Analysis of Most Common Encryption Algorithms on Different Web Browsers

    Directory of Open Access Journals (Sweden)

    R. Umarani

    2012-11-01

    Full Text Available The hacking is the greatest problem in the wireless local area network (WLAN. Many algorithms like DES, 3DES, AES,UMARAM, RC6 and UR5 have been used to prevent the outside attacks to eavesdrop or prevent the data to be transferred to the end-user correctly. We have proposed a Web programming language to be analyzed with five Web browsers in term of their performances to process the encryption of the programming language’s script with the Web browsers. This is followed by conducting tests simulation in order to obtain the best encryption algorithm versus Web browser. The results of the experimental analysis are presented in the form of graphs. We finally conclude on the findings that different algorithms perform differently to different Web browsers like Internet Explorer, Mozilla Firefox, Opera and Netscape Navigator. Hence, we now determine which algorithm works best and most compatible with which Web browser.A comparison has been conducted for those encryption algorithms at different settings for each algorithm such as encryption/decryption speed in the different web Browsers. Experimental results are given to demonstrate the effectiveness of each algorithm.

  6. An "Electronic Fluorescent Pictograph" browser for exploring and analyzing large-scale biological data sets.

    Directory of Open Access Journals (Sweden)

    Debbie Winter

    Full Text Available BACKGROUND: The exploration of microarray data and data from other high-throughput projects for hypothesis generation has become a vital aspect of post-genomic research. For the non-bioinformatics specialist, however, many of the currently available tools provide overwhelming amounts of data that are presented in a non-intuitive way. METHODOLOGY/PRINCIPAL FINDINGS: In order to facilitate the interpretation and analysis of microarray data and data from other large-scale data sets, we have developed a tool, which we have dubbed the electronic Fluorescent Pictograph - or eFP - Browser, available at http://www.bar.utoronto.ca/, for exploring microarray and other data for hypothesis generation. This eFP Browser engine paints data from large-scale data sets onto pictographic representations of the experimental samples used to generate the data sets. We give examples of using the tool to present Arabidopsis gene expression data from the AtGenExpress Consortium (Arabidopsis eFP Browser, data for subcellular localization of Arabidopsis proteins (Cell eFP Browser, and mouse tissue atlas microarray data (Mouse eFP Browser. CONCLUSIONS/SIGNIFICANCE: The eFP Browser software is easily adaptable to microarray or other large-scale data sets from any organism and thus should prove useful to a wide community for visualizing and interpreting these data sets for hypothesis generation.

  7. An Asynchronous P300-Based Brain-Computer Interface Web Browser for Severely Disabled People.

    Science.gov (United States)

    Martinez-Cagigal, Victor; Gomez-Pilar, Javier; Alvarez, Daniel; Hornero, Roberto

    2016-10-31

    This paper presents an electroencephalographic (EEG) P300-based brain-computer interface (BCI) Internet browser. The system uses the "odd-ball" row-col paradigm for generating the P300 evoked potentials on the scalp of the user, which are immediately processed and translated into web browser commands. There were previous approaches for controlling a BCI web browser. However, to the best of our knowledge, none of them was focused on an assistive context, failing to test their applications with a suitable number of end users. In addition, all of them were synchronous applications, where it was necessary to introduce a "read-mode" command in order to avoid a continuous command selection. Thus, the aim of this study is twofold: (i) to test our web browser with a population of multiple sclerosis (MS) patients in order to assess the usefulness of our proposal to meet their daily communication needs; and (ii) to overcome the aforementioned limitation by adding a threshold that discerns between control and non-control states, allowing the user to calmly read the web page without undesirable selections. The browser was tested with sixteen MS patients and five healthy volunteers. Both quantitative and qualitative metrics were obtained. MS participants reached an average accuracy of 84.14%, whereas 95.75% was achieved by control subjects. Results show that MS patients can successfully control the BCI web browser, improving their personal autonomy.

  8. License - Society Catalog | 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 ...se Update History of This Database Site Policy | Contact Us License - Society Catalog | LSDB Archive ...

  9. Download - RGP physicalmap | 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 ...ase Description Download License Update History of This Database Site Policy | Contact Us Download - RGP physicalmap | LSDB Archive ...

  10. Download - Society Catalog | 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 ...icense Update History of This Database Site Policy | Contact Us Download - Society Catalog | LSDB Archive ...

  11. License - KEGG MEDICUS | 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 ... Download License Update History of This Database Site Policy | Contact Us License - KEGG MEDICUS | LSDB Archive ...

  12. Download - Plabrain DB | 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 ...escription Download License Update History of This Database Site Policy | Contact Us Download - Plabrain DB | LSDB Archive ...

  13. Download - RGP caps | 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 ...atabase Description Download License Update History of This Database Site Policy | Contact Us Download - RGP caps | LSDB Archive ...

  14. Update to the legend of the reconnaissance soil map of Espírito Santo state and the implementation of Geobases interface for data usage in GIS

    Directory of Open Access Journals (Sweden)

    Alexson de Mello Cunha

    2016-12-01

    Full Text Available The objective of this study was the upgrade of soil mapping units defined in surveys published by the Radambrasil/ IBGE in 1983 and 1987, with the main focus on the clas - ses of soils. To accomplish this, data from representative soil profiles of those surveys were used to classify them in the current Brazilian Classification System. The mapping units which do not have representative profiles were updated based solely on the direct correlation between the denomination used in the old and current classification. This work has also updated the legend of the reconnaissance soil map. The layer of information related to soil, in shape format, containing an attribute table with data regarding mapping units and the respective updated legends (taxonomy, symbols and colors is currently available and can be downloaded by the general public using the Geobases browser. A specific geographic interface for the partners of Geobases dedicated to soil studies has also been created. This interface allows the analysis, acquisition and input of new data, which contributes to the non-duplication of efforts and financial resources on activities of surveying, registering and maintenance of geospatial database related to soils in the State

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

    Science.gov (United States)

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

    2015-03-01

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

  16. Hawaii bibliographic database

    Science.gov (United States)

    Wright, Thomas L.; Takahashi, Taeko Jane

    The Hawaii bibliographic database has been created to contain all of the literature, from 1779 to the present, pertinent to the volcanological history of the Hawaiian-Emperor volcanic chain. References are entered in a PC- and Macintosh-compatible EndNote Plus bibliographic database with keywords and s or (if no ) with annotations as to content. Keywords emphasize location, discipline, process, identification of new chemical data or age determinations, and type of publication. The database is updated approximately three times a year and is available to upload from an ftp site. The bibliography contained 8460 references at the time this paper was submitted for publication. Use of the database greatly enhances the power and completeness of library searches for anyone interested in Hawaiian volcanism.

  17. The 2012 Nucleic Acids Research Database Issue and the online Molecular Biology Database Collection.

    Science.gov (United States)

    Galperin, Michael Y; Fernández-Suárez, Xosé M

    2012-01-01

    The 19th annual Database Issue of Nucleic Acids Research features descriptions of 92 new online databases covering various areas of molecular biology and 100 papers describing recent updates to the databases previously described in NAR and other journals. The highlights of this issue include, among others, a description of neXtProt, a knowledgebase on human proteins; a detailed explanation of the principles behind the NCBI Taxonomy Database; NCBI and EBI papers on the recently launched BioSample databases that store sample information for a variety of database resources; descriptions of the recent developments in the Gene Ontology and UniProt Gene Ontology Annotation projects; updates on Pfam, SMART and InterPro domain databases; update papers on KEGG and TAIR, two universally acclaimed databases that face an uncertain future; and a separate section with 10 wiki-based databases, introduced in an accompanying editorial. The NAR online Molecular Biology Database Collection, available at http://www.oxfordjournals.org/nar/database/a/, has been updated and now lists 1380 databases. Brief machine-readable descriptions of the databases featured in this issue, according to the BioDBcore standards, will be provided at the http://biosharing.org/biodbcore web site. The full content of the Database Issue is freely available online on the Nucleic Acids Research web site (http://nar.oxfordjournals.org/).

  18. C# Database Basics

    CERN Document Server

    Schmalz, Michael

    2012-01-01

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

  19. Real Time Baseball Database

    Science.gov (United States)

    Fukue, Yasuhiro

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

  20. SoyFN: a knowledge database of soybean functional networks.

    Science.gov (United States)

    Xu, Yungang; Guo, Maozu; Liu, Xiaoyan; Wang, Chunyu; Liu, Yang

    2014-01-01

    Many databases for soybean genomic analysis have been built and made publicly available, but few of them contain knowledge specifically targeting the omics-level gene-gene, gene-microRNA (miRNA) and miRNA-miRNA interactions. Here, we present SoyFN, a knowledge database of soybean functional gene networks and miRNA functional networks. SoyFN provides user-friendly interfaces to retrieve, visualize, analyze and download the functional networks of soybean genes and miRNAs. In addition, it incorporates much information about KEGG pathways, gene ontology annotations and 3'-UTR sequences as well as many useful tools including SoySearch, ID mapping, Genome Browser, eFP Browser and promoter motif scan. SoyFN is a schema-free database that can be accessed as a Web service from any modern programming language using a simple Hypertext Transfer Protocol call. The Web site is implemented in Java, JavaScript, PHP, HTML and Apache, with all major browsers supported. We anticipate that this database will be useful for members of research communities both in soybean experimental science and bioinformatics. Database URL: http://nclab.hit.edu.cn/SoyFN.

  1. 浏览器CSS兼容问题探究%Exploration on Browsers Compatibility of Cascading Style Sheets

    Institute of Scientific and Technical Information of China (English)

    杨玉梅

    2013-01-01

    The diversification of browser leads to CSS compatibility issues to browsers during the website design.This paper first introduces a mainstream browser usage situation; then some kinds of mainstream browser kernel; finally,aiming at the supporting comparison of various versions of CSS selector browser,uses CSS Hack to solve browsers CSS compatibility issues.%浏览器的多样化导致网站设计中出现CSS对浏览器的兼容问题.本文首先介绍主流浏览器使用情况;接着介绍几种主流浏览器内核;最后针对CSS各版本选择器的浏览器支持比较,运用CSS Hack方式解决浏览器的CSS兼容问题.

  2. Rfam: updates to the RNA families database

    DEFF Research Database (Denmark)

    Gardner, Paul P; Daub, Jennifer; Tate, John G

    2008-01-01

    Rfam is a collection of RNA sequence families, represented by multiple sequence alignments and covariance models (CMs). The primary aim of Rfam is to annotate new members of known RNA families on nucleotide sequences, particularly complete genomes, using sensitive BLAST filters in combination...... with CMs. A minority of families with a very broad taxonomic range (e.g. tRNA and rRNA) provide the majority of the sequence annotations, whilst the majority of Rfam families (e.g. snoRNAs and miRNAs) have a limited taxonomic range and provide a limited number of annotations. Recent improvements...

  3. WDDD: Worm Developmental Dynamics Database

    Science.gov (United States)

    Kyoda, Koji; Adachi, Eru; Masuda, Eriko; Nagai, Yoko; Suzuki, Yoko; Oguro, Taeko; Urai, Mitsuru; Arai, Ryoko; Furukawa, Mari; Shimada, Kumiko; Kuramochi, Junko; Nagai, Eriko; Onami, Shuichi

    2013-01-01

    During animal development, cells undergo dynamic changes in position and gene expression. A collection of quantitative information about morphological dynamics under a wide variety of gene perturbations would provide a rich resource for understanding the molecular mechanisms of development. Here, we created a database, the Worm Developmental Dynamics Database (http://so.qbic.riken.jp/wddd/), which stores a collection of quantitative information about cell division dynamics in early Caenorhabditis elegans embryos with single genes silenced by RNA-mediated interference. The information contains the three-dimensional coordinate values of the outlines of nuclear regions and the dynamics of the outlines over time. The database provides free access to 50 sets of quantitative data for wild-type embryos and 136 sets of quantitative data for RNA-mediated interference embryos corresponding to 72 of the 97 essential embryonic genes on chromosome III. The database also provides sets of four-dimensional differential interference contrast microscopy images on which the quantitative data were based. The database will provide a novel opportunity for the development of computational methods to obtain fresh insights into the mechanisms of development. The quantitative information and microscopy images can be synchronously viewed through a web browser, which is designed for easy access by experimental biologists. PMID:23172286

  4. How Documentalists Update SIMBAD

    Science.gov (United States)

    Buga, M.; Bot, C.; Brouty, M.; Bruneau, C.; Brunet, C.; Cambresy, L.; Eisele, A.; Genova, F.; Lesteven, S.; Loup, C.; Neuville, M.; Oberto, A.; Ochsenbein, F.; Perret, E.; Siebert, A.; Son, E.; Vannier, P.; Vollmer, B.; Vonflie, P.; Wenger, M.; Woelfel, F.

    2015-04-01

    The Strasbourg astronomical Data Center (CDS) was created in 1972 and has had a major role in astronomy for more than forty years. CDS develops a service called SIMBAD that provides basic data, cross-identifications, bibliography, and measurements for astronomical objects outside the solar system. It brings to the scientific community an added value to content which is updated daily by a team of documentalists working together in close collaboration with astronomers and IT specialists. We explain how the CDS staff updates SIMBAD with object citations in the main astronomical journals, as well as with astronomical data and measurements. We also explain how the identification is made between the objects found in the literature and those already existing in SIMBAD. We show the steps followed by the documentalist team to update the database using different tools developed at CDS, like the sky visualizer Aladin, and the large catalogues and survey database VizieR. As a direct result of this teamwork, SIMBAD integrates almost 10.000 bibliographic references per year. The service receives more than 400.000 queries per day.

  5. A framework for web browser-based medical simulation using WebGL.

    Science.gov (United States)

    Halic, Tansel; Ahn, Woojin; De, Suvranu

    2012-01-01

    This paper presents a web browser-based software framework that provides accessibility, portability, and platform independence for medical simulation. Typical medical simulation systems are restricted to the underlying platform and device, which limits widespread use. Our framework allows realistic and efficient medical simulation using only the web browser for anytime anywhere access using a variety of platforms ranging from desktop PCs to tablets. The framework consists of visualization, simulation, and hardware integration modules that are fundamental components for multimodal interactive simulation. Benchmark tests are performed to validate the rendering and computing performance of our framework with latest web browsers including Chrome and Firefox. The results are quite promising opening up the possibility of developing web-based medical simulation technology.

  6. ECR Browser: A Tool For Visualizing And Accessing Data From Comparisons Of Multiple Vertebrate Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Loots, G G; Ovcharenko, I; Stubbs, L; Nobrega, M A

    2004-01-06

    The increasing number of vertebrate genomes being sequenced in draft or finished form provide a unique opportunity to study and decode the language of DNA sequence through comparative genome alignments. However, novel tools and strategies are required to accommodate this increasing volume of genomic information and to facilitate experimental annotation of genome function. Here we present the ECR Browser, a tool that provides an easy and dynamic access to whole genome alignments of human, mouse, rat and fish sequences. This web-based tool (http://ecrbrowser.dcode.org) provides the starting point for discovery of novel genes, identification of distant gene regulatory elements and prediction of transcription factor binding sites. The genome alignment portal of the ECR Browser also permits fast and automated alignment of any user-submitted sequence to the genome of choice. The interconnection of the ECR browser with other DNA sequence analysis tools creates a unique portal for studying and exploring vertebrate genomes.

  7. The ExAC browser: displaying reference data information from over 60 000 exomes

    Science.gov (United States)

    Karczewski, Konrad J.; Weisburd, Ben; Thomas, Brett; Solomonson, Matthew; Ruderfer, Douglas M.; Kavanagh, David; Hamamsy, Tymor; Lek, Monkol; Samocha, Kaitlin E.; Cummings, Beryl B.; Birnbaum, Daniel; Daly, Mark J.; MacArthur, Daniel G.

    2017-01-01

    Worldwide, hundreds of thousands of humans have had their genomes or exomes sequenced, and access to the resulting data sets can provide valuable information for variant interpretation and understanding gene function. Here, we present a lightweight, flexible browser framework to display large population datasets of genetic variation. We demonstrate its use for exome sequence data from 60 706 individuals in the Exome Aggregation Consortium (ExAC). The ExAC browser provides gene- and transcript-centric displays of variation, a critical view for clinical applications. Additionally, we provide a variant display, which includes population frequency and functional annotation data as well as short read support for the called variant. This browser is open-source, freely available at http://exac.broadinstitute.org, and has already been used extensively by clinical laboratories worldwide. PMID:27899611

  8. Mitigating Man-In-The-Browser Attacks with Hardware-based Authentication Scheme

    Directory of Open Access Journals (Sweden)

    Fazli Bin Mat Nor

    2015-05-01

    Full Text Available Lack of security awareness amongst end users when dealing with online banking and electronic commerce leave many client side application vulnerabilities open. Thus, this is enables attackers to exploit the vulnerabilities and launch client-side attacks such as man-in-the-browser attack. The attack is designed to manipulate sensitive information via client’s application such as internet browser by taking advantage of the browser’s extension vulnerabilities. This attack exists due to lack of preventive measurement to detect any malicious changes on the client side platform. Therefore, in this paper we are proposing an enhanced remote authentication protocol with hardware based attestation and pseudonym identity enhancement to mitigate man-in-the-browser attacks as well as improving user identity privacy.

  9. Make Communication Between Browser and Server by Using Cookie Technology%巧妙运用Cookie技术进行Browser/Server通信

    Institute of Scientific and Technical Information of China (English)

    刘利军; 侯关士; 杨宗煦

    2001-01-01

    以一个在Browse/Seerver通信方式下对员工信息的处理为例,介绍了一种笔者在实际商业网站开发中经常用到的、以Cookie作为ASP和JavaScript技术的中介从而巧妙地在测览器和服务器间进行通信的应用技巧.%This paper takes a disposal of the workers information under the Browser/Server communication way as an example, and introduces a method that the writers often use in the development of business Web site .In this method, the Cookie technology is used skillfully as the agency between the ASP technology and the JavaScript technology, and makes the browser communicating with the Web server dynamically.

  10. Comparative Study of Cross Browser Compatibility as Design Issue in Various Websites

    Directory of Open Access Journals (Sweden)

    Jatinder Manhas

    2015-01-01

    Full Text Available In this current era of information technology websites are very important means of communication. Lot of efforts is required by different institutions / organizations to portray complete information on beautifully designed websites. Websites act as an online agent through which a user can get his work done without physically visiting the organizations. Website design is given with a very critical look by the designer so that it can provide users with all the facilities of the concerned institutions / organizations online. To make websites behavior similar in all the different browsers employed by the different categories of the users, the responsibility of the designer and the concerned institutions / organizations increases manifold. In this research paper author developed an online tool using .NET Framework using C# to study cross browser compatibility as Design issue in various categories of the websites like Job portals, Government, educational, Commercial and Social networking. The automated tool developed by author function on the basis of the different standards prescribed in W3C guidelines document UAAG 2.0 [7] and act like a parser and renders the complete code of the website and produces result on basis of the behavior of the websites in five most popular and widely used Browsers like parameters like Internet Explorer[7,8,9], Chrome, Safari, Fire fox. Each Browser is tested on the basis of the five parameters which are included in the parser are Blinking, Active X control, Website Resolution; image Formats, HTML Tag errors. The results obtained after testing five different categories of websites shows that educational and social networking sites shows least compatibility in multiple browsers where as job portals, commercial and government websites shows 100% compliance to the website design standards recommended by W3C w.r.t browser compatibility of different websites on different browsing platform.

  11. Sealife: a semantic grid browser for the life sciences applied to the study of infectious diseases.

    Science.gov (United States)

    Schroeder, Michael; Burger, Albert; Kostkova, Patty; Stevens, Robert; Habermann, Bianca; Dieng-Kuntz, Rose

    2006-01-01

    The objective of Sealife is the conception and realisation of a semantic Grid browser for the life sciences, which will link the existing Web to the currently emerging eScience infrastructure. The SeaLife Browser will allow users to automatically link a host of Web servers and Web/Grid services to the Web content he/she is visiting. This will be accomplished using eScience's growing number of Web/Grid Services and its XML-based standards and ontologies. The browser will identify terms in the pages being browsed through the background knowledge held in ontologies. Through the use of Semantic Hyperlinks, which link identified ontology terms to servers and services, the SeaLife Browser will offer a new dimension of context-based information integration. In this paper, we give an overview over the different components of the browser and their interplay. This SeaLife Browser will be demonstrated within three application scenarios in evidence-based medicine, literature & patent mining, and molecular biology, all relating to the study of infectious diseases. The three applications vertically integrate the molecule/cell, the tissue/organ and the patient/population level by covering the analysis of high-throughput screening data for endocytosis (the molecular entry pathway into the cell), the expression of proteins in the spatial context of tissue and organs, and a high-level library on infectious diseases designed for clinicians and their patients. For more information see http://www.biote.ctu-dresden.de/sealife.

  12. Important update of CERN Mail Services

    CERN Multimedia

    IT Department

    2009-01-01

    The CERN Mail Services are evolving. In the course of June and July 2009, all CERN mailboxes will be updated with a new infrastructure for hosting mailboxes, running Exchange 2007. This update is taking place in order to provide the capacity upgrade for the constantly growing volume of CERN mailboxes. It is also the opportunity to provide a number of improvements to CERN mailboxes: new and improved Outlook Web Access (the web interface used to access your mailbox from a web browser, also known as "webmail"), new features in the Out-of-Office auto-reply assistant, easier spam management... The update will preserve the mailbox configuration and no specific action is required by users. During the next weeks, each mailbox will be individually notified of the upcoming update the day before it takes place. We invite all users to carefully read this notification as it will contain the latest information for this update. The mailbox will be unavailable for a short time during the ni...

  13. On Simplification of Database Integrity Constraints

    DEFF Research Database (Denmark)

    Christiansen, Henning; Martinenghi, Davide

    2006-01-01

    Without proper simplification techniques, database integrity checking can be prohibitively time consuming. Several methods have been developed for producing simplified incremental checks for each update but none until now of sufficient quality and generality for providing a true practical impact,...

  14. To Create a Application Program of Browser/Server Structure With PB%用PB建立Browser/Server结构应用程序

    Institute of Scientific and Technical Information of China (English)

    王宗江

    2002-01-01

    本文主要论述用PowerBuilder建立Browser/Server结构的应用程序的方法,用以实现Internet/Intranet的工作方式,并对实现方式的几种重要模块的数据流程进行论述,同时给出了具体的编程实例.

  15. GeneWiz browser: An Interactive Tool for Visualizing Sequenced Chromosomes

    DEFF Research Database (Denmark)

    Hallin, Peter Fischer; Stærfeldt, Hans Henrik; Rotenberg, Eva;

    2009-01-01

    We present an interactive web application for visualizing genomic data of prokaryotic chromosomes. The tool (GeneWiz browser) allows users to carry out various analyses such as mapping alignments of homologous genes to other genomes, mapping of short sequencing reads to a reference chromosome......, and calculating DNA properties such as curvature or stacking energy along the chromosome. The GeneWiz browser produces an interactive graphic that enables zooming from a global scale down to single nucleotides, without changing the size of the plot. Its ability to disproportionally zoom provides optimal...

  16. Circular Updates

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Circular Updates are periodic sequentially numbered instructions to debriefing staff and observers informing them of changes or additions to scientific and specimen...

  17. Website updates

    Data.gov (United States)

    National Aeronautics and Space Administration — Updates to Website: (Please add new items at the top of this description with the date of the website change) May 9, 2012: Uploaded experimental data in matlab...

  18. GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes.

    Science.gov (United States)

    Chan, Patricia P; Lowe, Todd M

    2016-01-01

    Transfer RNAs represent the largest, most ubiquitous class of non-protein coding RNA genes found in all living organisms. The tRNAscan-SE search tool has become the de facto standard for annotating tRNA genes in genomes, and the Genomic tRNA Database (GtRNAdb) was created as a portal for interactive exploration of these gene predictions. Since its published description in 2009, the GtRNAdb has steadily grown in content, and remains the most commonly cited web-based source of tRNA gene information. In this update, we describe not only a major increase in the number of tRNA predictions (>367000) and genomes analyzed (>4370), but more importantly, the integration of new analytic and functional data to improve the quality and biological context of tRNA gene predictions. New information drawn from other sources includes tRNA modification data, epigenetic data, single nucleotide polymorphisms, gene expression and evolutionary conservation. A richer set of analytic data is also presented, including better tRNA functional prediction, non-canonical features, predicted structural impacts from sequence variants and minimum free energy structural predictions. Views of tRNA genes in genomic context are provided via direct links to the UCSC genome browsers. The database can be searched by sequence or gene features, and is available at http://gtrnadb.ucsc.edu/.

  19. The Event Browser:An Intutive Approach to Browsing BaBar Object Databases

    Institute of Scientific and Technical Information of China (English)

    AdeyemiAdesanya

    2001-01-01

    Providing efficient access to more than 300TB of experiment data is the responsibility of the BaBar1 Databases Group.Unlike generic tools,The Event Browser presents users with an abstraction of the BaBar data model.Multithreaded CORBA2 servers perform database operations using small transactions in an effort to avoid lock contention issues and provide adequate response times.The GUI client is implemented in Java and can be easily deployed throughout the community in the form of a web applet.The browser allows users to examine collections of related physics events and identify associations between the collections and the physical files in which they reside,helping administrators distribute data to other sites worldwide,This paper discusses the various aspects of the Event Browser including requirements,design challenges and key features of the current implementation.

  20. 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

  1. Specialist Bibliographic Databases.

    Science.gov (United States)

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

    2016-05-01

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

  2. 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.

  3. 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...

  4. Enhancing Independent Internet Access for Individuals with Mental Retardation through Use of a Specialized Web Browser: A Pilot Study.

    Science.gov (United States)

    Davies, Daniel K.; Stock, Steven E.; Wehmeyer, Michael L.

    2001-01-01

    In this study, a prototype web browser, called Web Trek, that utilizes multimedia to provide access for individuals with cognitive disabilities was developed and pilot-tested with 12 adults with mental retardation. The Web Trek browser provided greater independence in accessing the Internet compared to Internet Explorer. (Contains references.)…

  5. Deco-video: video editing and viewing browser enables to playback movie contents reproduced by using scene scenario

    Science.gov (United States)

    Ishihara, Takashi; Sakamoto, Kunio

    2008-03-01

    The authors developed a prototype video viewing browser. Our video viewer has a function to playback movies on the WWW according to the playing scenario. This scenario makes new scenes from original movies. Our video browser features this scene scenario where you can arrange movie's video clips, insert transition effects, apply colored backgrounds, or add captions and titles. The video movie contents on the WWW are copyrighted. The browser cannot alter web's movie contents owing to its copyright like that a conventional video editing software adds effects to the original. The editing software produces reproductions, but our browser doesn't. The browser adds effects according to the scenario and only shows us a new scene. The scene scenario is written in an XML-like script. The video browser has a function to give effect according to operations of the scenario. In addition, our video viewing browser can provide us with an interactive video art. For example, suppose that a small stream runs down among the rocks. On the browser, if you chose an icon which shows maple leafs and drop it into the stream, a maple leaf starts floating down along the stream.

  6. License - Yeast Interacting Proteins Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available dard License, as long as you comply with the following conditions: You must attribute this database in the m...Yeast Interacting Proteins Database License to Use This Database Last updated : 2010/02/15 You may use this ...f this database and the requirements you must follow in using this database. The Additional License specifie...ified in the Creative Commons Attribution-Share Alike 2.1 Japan . If you use data from this database, please...The summary of the Creative Commons Attribution-Share Alike 2.1 Japan is found here . With regard to this database, you

  7. The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease.

    Science.gov (United States)

    Eppig, Janan T; Blake, Judith A; Bult, Carol J; Kadin, James A; Richardson, Joel E

    2015-01-01

    The Mouse Genome Database (MGD, http://www.informatics.jax.org) serves the international biomedical research community as the central resource for integrated genomic, genetic and biological data on the laboratory mouse. To facilitate use of mouse as a model in translational studies, MGD maintains a core of high-quality curated data and integrates experimentally and computationally generated data sets. MGD maintains a unified catalog of genes and genome features, including functional RNAs, QTL and phenotypic loci. MGD curates and provides functional and phenotype annotations for mouse genes using the Gene Ontology and Mammalian Phenotype Ontology. MGD integrates phenotype data and associates mouse genotypes to human diseases, providing critical mouse-human relationships and access to repositories holding mouse models. MGD is the authoritative source of nomenclature for genes, genome features, alleles and strains following guidelines of the International Committee on Standardized Genetic Nomenclature for Mice. A new addition to MGD, the Human-Mouse: Disease Connection, allows users to explore gene-phenotype-disease relationships between human and mouse. MGD has also updated search paradigms for phenotypic allele attributes, incorporated incidental mutation data, added a module for display and exploration of genes and microRNA interactions and adopted the JBrowse genome browser. MGD resources are freely available to the scientific community.

  8. 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.

  9. New Perspectives on Popular Culture, Science and Technology: Web Browsers and the New Illiteracy

    Science.gov (United States)

    Charters, Elizabeth

    2004-01-01

    Analysts predict that the knowledge economy of the near future will require people to be both computer literate and print literate. However, some of the reading and thinking habits of current college students suggest that electronic media such as web browsers may be limiting the new generation's ability to absorb and process what they read. Their…

  10. The HIV mutation browser: a resource for human immunodeficiency virus mutagenesis and polymorphism data.

    Science.gov (United States)

    Davey, Norman E; Satagopam, Venkata P; Santiago-Mozos, Salvador; Villacorta-Martin, Carlos; Bharat, Tanmay A M; Schneider, Reinhard; Briggs, John A G

    2014-12-01

    Huge research effort has been invested over many years to determine the phenotypes of natural or artificial mutations in HIV proteins--interpretation of mutation phenotypes is an invaluable source of new knowledge. The results of this research effort are recorded in the scientific literature, but it is difficult for virologists to rapidly find it. Manually locating data on phenotypic variation within the approximately 270,000 available HIV-related research articles, or the further 1,500 articles that are published each month is a daunting task. Accordingly, the HIV research community would benefit from a resource cataloguing the available HIV mutation literature. We have applied computational text-mining techniques to parse and map mutagenesis and polymorphism information from the HIV literature, have enriched the data with ancillary information and have developed a public, web-based interface through which it can be intuitively explored: the HIV mutation browser. The current release of the HIV mutation browser describes the phenotypes of 7,608 unique mutations at 2,520 sites in the HIV proteome, resulting from the analysis of 120,899 papers. The mutation information for each protein is organised in a residue-centric manner and each residue is linked to the relevant experimental literature. The importance of HIV as a global health burden advocates extensive effort to maximise the efficiency of HIV research. The HIV mutation browser provides a valuable new resource for the research community. The HIV mutation browser is available at: http://hivmut.org.

  11. MediaMill: Fast and effective video search using the ForkBrowser

    NARCIS (Netherlands)

    de Rooij, O.; Snoek, C.G.M.; Worring, M.

    2008-01-01

    In this technical demonstration we showcase the MediaMill ForkBrowser for video retrieval. It embeds multiple query methods into a single browsing environment. We show that users can switch query methods on demand without the need to adapt to a different interface. This allows for fast and effective

  12. Web Browser History Detection as a Real-World Privacy Threat

    CERN Document Server

    Janc, A

    2010-01-01

    Web browser history detection using CSS $visited$ styles has long been dismissed as an issue of marginal impact. However, due to recent changes in Web usage patterns, coupled with browser performance improvements, the long-standing issue has now become a significant threat to the privacy of Internet users. In this paper we analyze the impact of CSS-based history detection and demonstrate the feasibility of conducting practical attacks with minimal resources. We analyze Web browser behavior and detectability of content loaded via standard protocols and with various HTTP response codes. We develop an algorithm for efficient examination of large link sets and evaluate its performance in modern browsers. Compared to existing methods our approach is up to 6 times faster, and is able to detect up to 30,000 visited links per second. We present a novel Web application capable of effectively detecting clients’ browsing histories and discuss real-world results obtained from 271,576 Internet users. Our results indicat...

  13. Piracy Versus Privacy: An Analysis of Values Encoded in the PirateBrowser

    NARCIS (Netherlands)

    Bodó, B.

    2015-01-01

    The Piratebrowser is a web browser which utilizes the Privacy Enhancing Technology Tor to circumvent nationally implemented internet filters blocking the access to the Pirate Bay. The article analyzes the possible consequences of a mass influx of copyright pirates into the privacy domain. It address

  14. Webvise: Browser and Proxy support for open hypermedia structuring mechanisms on the WWW

    DEFF Research Database (Denmark)

    Grønbæk, Kaj; Sloth, Lennard; Ørbæk, Peter

    1999-01-01

    is available on the Web via an ordinary URL. The best user interface for creating and manipulating the structures is currently provided for the Microsoft Internet Explorer 4.x browser through COM integration that utilizes the Explorer's DOM representation of Web-pages. But the structures can also...

  15. 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…

  16. Design and implementation of a P300-based brain-computer interface for controlling an internet browser.

    Science.gov (United States)

    Mugler, Emily M; Ruf, Carolin A; Halder, Sebastian; Bensch, Michael; Kubler, Andrea

    2010-12-01

    An electroencephalographic (EEG) brain-computer interface (BCI) internet browser was designed and evaluated with 10 healthy volunteers and three individuals with advanced amyotrophic lateral sclerosis (ALS), all of whom were given tasks to execute on the internet using the browser. Participants with ALS achieved an average accuracy of 73% and a subsequent information transfer rate (ITR) of 8.6 bits/min and healthy participants with no prior BCI experience over 90% accuracy and an ITR of 14.4 bits/min. We define additional criteria for unrestricted internet access for evaluation of the presented and future internet browsers, and we provide a review of the existing browsers in the literature. The P300-based browser provides unrestricted access and enables free web surfing for individuals with paralysis.

  17. Basical information - KOME | 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 ...ation about full-length cDNA clones Data file File name: kome_basical_information.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...base Database Description Download License Update History of This Database Site Policy | Contact Us Basical information - KOME | LSDB Archive ...

  18. Genomic Dynamism - RMG | 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 ...le name: rmg_genomic_dynamism.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rmg/LATEST/rmg_genomic_dynami...abase Database Description Download License Update History of This Database Site Policy | Contact Us Genomic Dynamism - RMG | LSDB Archive ...

  19. KEUNTUNGAN PENGGUNAAN EXTERNAL FUNCTION PADA DATABASE POSTGRESQL

    Directory of Open Access Journals (Sweden)

    Nahrun Hartono

    2015-02-01

    Full Text Available Database id a central data for an information system, there were many database system applications that revolve both paid and free. PostgreSQL is one of the free database system and it has the powerful feature, one of the feature that make it different with others sysem is a function features, where the users can make their function by them selves by using spesific programming language, then it can be called return for executed. In this research the writer tries for conducting additional data testing by using INSERT Query and External Function Query on the terminal/command prompt and web browser. From the result of the trial, the research found that the average of time in additional data processing on the terminal/command prompt by using INSERT Query was 185.293 ms and the average of time External Function Query proccess was 129.52 ms, while the average of time in additional data processing on web browser by using INSERT Query was 168.363 ms and External Function Query was 145.64 ms. There was a difference both of the query, but the important thing and should be noted that external function is a command was defined by stand alone by the user, this matter lets the user to determine a specify command that they need.

  20. GrayStarServer: Server-side spectrum synthesis with a browser-based client-side user interface

    CERN Document Server

    Short, C Ian

    2016-01-01

    I present GrayStarServer (GSS), a stellar atmospheric modeling and spectrum synthesis code of pedagogical accuracy that is accessible in any web browser on commonplace computational devices and that runs on a time-scale of a few seconds. The addition of spectrum synthesis annotated with line identifications extends the functionality and pedagogical applicability of GSS beyond that of its predecessor, GrayStar3 (GS3). The spectrum synthesis is based on a line list acquired from the NIST atomic spectra database, and the GSS post-processing and user interface (UI) client allows the user to inspect the plain text ASCII version of the line list, as well as to apply macroscopic broadening. Unlike GS3, GSS carries out the physical modeling on the server side in Java, and communicates with the JavaScript and HTML client via an asynchronous HTTP request. I also describe other improvements beyond GS3 such as more realistic modeling physics and use of the HTML element for higher quality plotting and rendering of result...

  1. Maize microarray annotation database

    Directory of Open Access Journals (Sweden)

    Berger Dave K

    2011-10-01

    the MaizeGDB genome browser as a custom track. The database was used to re-annotate lists of differentially expressed genes reported in case studies of published work using the Agilent-016047 maize microarray. Up to 85% of reporters in each list could be annotated with confidence by a single gene model, however up to 10% of reporters had ambiguous annotations. Overall, more than 57% of reporters gave a measurable signal in tissues as diverse as anthers and leaves. Conclusions The Maize Microarray Annotation Database will assist users of the Agilent-016047 maize microarray in (i refining gene lists for global expression analysis, and (ii confirming the annotation of candidate genes before functional studies.

  2. Optimal database locks for efficient integrity checking

    DEFF Research Database (Denmark)

    Martinenghi, Davide

    2004-01-01

    In concurrent database systems, correctness of update transactions refers to the equivalent effects of the execution schedule and some serial schedule over the same set of transactions. Integrity constraints add further semantic requirements to the correctness of the database states reached upon ...

  3. Statistical Viewer: a tool to upload and integrate linkage and association data as plots displayed within the Ensembl genome browser

    Directory of Open Access Journals (Sweden)

    Hauser Elizabeth R

    2005-04-01

    Full Text Available Abstract Background To facilitate efficient selection and the prioritization of candidate complex disease susceptibility genes for association analysis, increasingly comprehensive annotation tools are essential to integrate, visualize and analyze vast quantities of disparate data generated by genomic screens, public human genome sequence annotation and ancillary biological databases. We have developed a plug-in package for Ensembl called "Statistical Viewer" that facilitates the analysis of genomic features and annotation in the regions of interest defined by linkage analysis. Results Statistical Viewer is an add-on package to the open-source Ensembl Genome Browser and Annotation System that displays disease study-specific linkage and/or association data as 2 dimensional plots in new panels in the context of Ensembl's Contig View and Cyto View pages. An enhanced upload server facilitates the upload of statistical data, as well as additional feature annotation to be displayed in DAS tracts, in the form of Excel Files. The Statistical View panel, drawn directly under the ideogram, illustrates lod score values for markers from a study of interest that are plotted against their position in base pairs. A module called "Get Map" easily converts the genetic locations of markers to genomic coordinates. The graph is placed under the corresponding ideogram features a synchronized vertical sliding selection box that is seamlessly integrated into Ensembl's Contig- and Cyto- View pages to choose the region to be displayed in Ensembl's "Overview" and "Detailed View" panels. To resolve Association and Fine mapping data plots, a "Detailed Statistic View" plot corresponding to the "Detailed View" may be displayed underneath. Conclusion Features mapping to regions of linkage are accentuated when Statistic View is used in conjunction with the Distributed Annotation System (DAS to display supplemental laboratory information such as differentially expressed disease

  4. The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection.

    Science.gov (United States)

    Fernández-Suárez, Xosé M; Galperin, Michael Y

    2013-01-01

    The 20th annual Database Issue of Nucleic Acids Research includes 176 articles, half of which describe new online molecular biology databases and the other half provide updates on the databases previously featured in NAR and other journals. This year's highlights include two databases of DNA repeat elements; several databases of transcriptional factors and transcriptional factor-binding sites; databases on various aspects of protein structure and protein-protein interactions; databases for metagenomic and rRNA sequence analysis; and four databases specifically dedicated to Escherichia coli. The increased emphasis on using the genome data to improve human health is reflected in the development of the databases of genomic structural variation (NCBI's dbVar and EBI's DGVa), the NIH Genetic Testing Registry and several other databases centered on the genetic basis of human disease, potential drugs, their targets and the mechanisms of protein-ligand binding. Two new databases present genomic and RNAseq data for monkeys, providing wealth of data on our closest relatives for comparative genomics purposes. The NAR online Molecular Biology Database Collection, available at http://www.oxfordjournals.org/nar/database/a/, has been updated and currently lists 1512 online databases. The full content of the Database Issue is freely available online on the Nucleic Acids Research website (http://nar.oxfordjournals.org/).

  5. Professional iOS database application programming

    CERN Document Server

    Alessi, Patrick

    2013-01-01

    Updated and revised coverage that includes the latest versions of iOS and Xcode Whether you're a novice or experienced developer, you will want to dive into this updated resource on database application programming for the iPhone and iPad. Packed with more than 50 percent new and revised material - including completely rebuilt code, screenshots, and full coverage of new features pertaining to database programming and enterprise integration in iOS 6 - this must-have book intends to continue the precedent set by the previous edition by helping thousands of developers master database

  6. Geologic Field Database

    Directory of Open Access Journals (Sweden)

    Katarina Hribernik

    2002-12-01

    Full Text Available The purpose of the paper is to present the field data relational database, which was compiled from data, gathered during thirty years of fieldwork on the Basic Geologic Map of Slovenia in scale1:100.000. The database was created using MS Access software. The MS Access environment ensures its stability and effective operation despite changing, searching, and updating the data. It also enables faster and easier user-friendly access to the field data. Last but not least, in the long-term, with the data transferred into the GISenvironment, it will provide the basis for the sound geologic information system that will satisfy a broad spectrum of geologists’ needs.

  7. Database design and SQL for DB2

    CERN Document Server

    Cooper, James

    2013-01-01

    Thorough and updated coverage of database design and SQL for DB2 are the focus of this guide for the relational database-management system used on IBM i computer systems. Suitable for classroom instruction or self-study, this book explains the most widely used database language and the way that language is implemented on a variety of computer platforms. Topics covered include database concepts, SQL inquiries, web applications, and database security, and the material is reinforced by numerous illustrations, examples, and exercises.

  8. Nucleotide Sequence - KOME | 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 ..._db.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_ine_full_se...quence_db.zip File size: 19 MB File name: FASTA: kome_ine_full_sequence_db.fasta.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...rtio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Nucleotide Sequence - KOME | LSDB Archive ...

  9. Download - Taxonomy Icon | 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 ... this page, are not included in the Taxonomy Icon archive, and therefore under different terms of use. First...that the following data #4 and #5 are not included in the Taxonomy Icon archive, and therefore under differe...Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - Taxonomy Icon | LSDB Archive ...

  10. 5'-end sequences of budding yeast full-length cDNA clones - Budding yeast cDNA sequencing project | 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 ...a entries 83,706 entries - Joomla SEF URLs by Artio About This Database Database Description Download License Update

  11. Self-study program on HTML browser--application to Clinical Nursing General Remarks Course.

    Science.gov (United States)

    Ochiai, N; Sota, Y; Ezumi, H

    1997-01-01

    We created a self-study program using HTML browser on the Clinical Nursing General Remarks Course, Eighty-three students each selected a published book on a personal history (written personal reflections from individuals who had undergone medical treatment and hospitalization), read it and submitted reports of their impressions of the histories. Their reports were arranged from a nursing perspective and entered on the home page of our college using HTML browser. We intended that the students would become more interested in reading of the personal histories, and that they would acquire new self-study skills and increase their interest in Internet through use of our program. In addition, we hoped that this program would encourage positive communication and mutual sharing of information. The students were able to easily refer to a personal history according to their interest from a nursing perspective. Therefore this program realized the mutual learning among students and other users.

  12. Modeling the HTML DOM and Browser API in Static Analysis of JavaScript Web Applications

    DEFF Research Database (Denmark)

    Jensen, Simon Holm; Madsen, Magnus; Møller, Anders

    2011-01-01

    Developers of JavaScript web applications have little tool support for catching errors early in development. In comparison, an abundance of tools exist for statically typed languages, including sophisticated integrated development environments and specialized static analyses. Transferring...... such technologies to the domain of JavaScript web applications is challenging. In this paper, we discuss the challenges, which include the dynamic aspects of JavaScript and the complex interactions between JavaScript, HTML, and the browser. From this, we present the first static analysis that is capable...... of reasoning about the flow of control and data in modern JavaScript applications that interact with the HTML DOM and browser API. One application of such a static analysis is to detect type-related and dataflow-related programming errors. We report on experiments with a range of modern web applications...

  13. A Human "eFP" Browser for Generating Gene Expression Anatograms.

    Science.gov (United States)

    Patel, Rohan V; Hamanishi, Erin T; Provart, Nicholas J

    2016-01-01

    Transcriptomic studies help to further our understanding of gene function. Human transcriptomic studies tend to focus on a particular subset of tissue types or a particular disease state; however, it is possible to collate into a compendium multiple studies that have been profiled using the same expression analysis platform to provide an overview of gene expression levels in many different tissues or under different conditions. In order to increase the knowledge and understanding we gain from such studies, intuitive visualization of gene expression data in such a compendium can be useful. The Human eFP ("electronic Fluorescent Pictograph") Browser presented here is a tool for intuitive visualization of large human gene expression data sets on pictographic representations of the human body as gene expression "anatograms". Pictographic representations for new data sets may be generated easily. The Human eFP Browser can also serve as a portal to other gene-specific information through link-outs to various online resources.

  14. A Transliteration Algorithm for Adapting a Japanese Voice Controlled Browser to English

    Science.gov (United States)

    Saito, Kuniko; Shinohara, Akio; Nagata, Masaaki; Ohara, Hisashi

    We propose a novel algorithm to transliterate English to Japanese and its application to a voice controlled browser, which enable ordinary Japanese people to browse English Web site by voice. Speech recognition software designed for native English speakers do not work for most Japanese because Japanese can't pronounce English as native English speakers do. Therefore, we combined Japanese speech recognition software with English-to-Japanese transliteration software. The accuracy of our transliteration algorithm is 80% recall for the top candidate, and 92% recall for the top three candidates. The browser using this transliteration algorithm makes it possible for Japanese to navigate English Web pages almost as accurate as Japanese pages by voice commands.

  15. jsPsych: a JavaScript library for creating behavioral experiments in a Web browser.

    Science.gov (United States)

    de Leeuw, Joshua R

    2015-03-01

    Online experiments are growing in popularity, and the increasing sophistication of Web technology has made it possible to run complex behavioral experiments online using only a Web browser. Unlike with offline laboratory experiments, however, few tools exist to aid in the development of browser-based experiments. This makes the process of creating an experiment slow and challenging, particularly for researchers who lack a Web development background. This article introduces jsPsych, a JavaScript library for the development of Web-based experiments. jsPsych formalizes a way of describing experiments that is much simpler than writing the entire experiment from scratch. jsPsych then executes these descriptions automatically, handling the flow from one task to another. The jsPsych library is open-source and designed to be expanded by the research community. The project is available online at www.jspsych.org .

  16. The Open Anatomy Browser: A Collaborative Web-Based Viewer for Interoperable Anatomy Atlases

    Science.gov (United States)

    Halle, Michael; Demeusy, Valentin; Kikinis, Ron

    2017-01-01

    The Open Anatomy Browser (OABrowser) is an open source, web-based, zero-installation anatomy atlas viewer based on current web browser technologies and evolving anatomy atlas interoperability standards. OABrowser displays three-dimensional anatomical models, image cross-sections of labeled structures and source radiological imaging, and a text-based hierarchy of structures. The viewer includes novel collaborative tools: users can save bookmarks of atlas views for later access and exchange those bookmarks with other users, and dynamic shared views allow groups of users can participate in a collaborative interactive atlas viewing session. We have published several anatomy atlases (an MRI-derived brain atlas and atlases of other parts of the anatomy) to demonstrate OABrowser’s functionality. The atlas source data, processing tools, and the source for OABrowser are freely available through GitHub and are distributed under a liberal open source license.

  17. Database Manager

    Science.gov (United States)

    Martin, Andrew

    2010-01-01

    It is normal practice today for organizations to store large quantities of records of related information as computer-based files or databases. Purposeful information is retrieved by performing queries on the data sets. The purpose of DATABASE MANAGER is to communicate to students the method by which the computer performs these queries. This…

  18. Memsat search result - KOME | 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 ... transmembrane region predictions Data file File name: kome_memsat_search_result.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...This Database Database Description Download License Update History of This Database Site Policy | Contact Us Memsat search result - KOME | LSDB Archive ...

  19. License - TMBETA-GENOME | 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 ...e. Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us License - TMBETA-GENOME | LSDB Archive ...

  20. Raw Data (FASTA format) - PLACE | 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 PLACE Raw Data (FAST...A format) Data detail Data name Raw Data (FASTA format) Description of data contents The document in FAST...his Database Database Description Download License Update History of This Database Site Policy | Contact Us Raw Data (FASTA format) - PLACE | LSDB Archive ...

  1. CEL file attributes - Open TG-GATEs | 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 Open... by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us CEL file attributes - Open TG-GATEs | LSDB Archive ...

  2. Vector sequences - Budding yeast cDNA sequencing project | 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 ...od - Number of data entries 7 entries - Joomla SEF URLs by Artio About This Database Database Description Download License Update His...tory of This Database Site Policy | Contact Us Vector sequences - Budding yeast cDNA sequencing project | LSDB Archive ...

  3. Formats and Network Protocols for Browser Access to 2D Raster Data

    Science.gov (United States)

    Plesea, L.

    2015-12-01

    Tiled web maps in browsers are a major success story, forming the foundation of many current web applications. Enabling tiled data access is the next logical step, and is likely to meet with similar success. Many ad-hoc approaches have already started to appear, and something similar is explored within the Open Geospatial Consortium. One of the main obstacles in making browser data access a reality is the lack of a well-known data format. This obstacle also represents an opportunity to analyze the requirements and possible candidates, applying lessons learned from web tiled image services and protocols. Similar to the image counterpart, a web tile raster data format needs to have good intrinsic compression and be able to handle high byte count data types including floating point. An overview of a possible solution to the format problem, a 2D data raster compression algorithm called Limited Error Raster Compression (LERC) will be presented. In addition to the format, best practices for high request rate HTTP services also need to be followed. In particular, content delivery network (CDN) caching suitability needs to be part of any design, not an after-thought. Last but not least, HTML 5 browsers will certainly be part of any solution since they provide improved access to binary data, as well as more powerful ways to view and interact with the data in the browser. In a simple but relevant application, digital elevation model (DEM) raster data is served as LERC compressed data tiles which are used to generate terrain by a HTML5 scene viewer.

  4. Experimental Analysis of Browser based Novel Anti-Phishing System Tool at Educational Level

    Directory of Open Access Journals (Sweden)

    Rajendra Gupta

    2016-02-01

    Full Text Available In the phishing attack, the user sends their confidential information on mimic websites and face the financial problem, so the user should be informed immediately about the visiting website. According to the Third Quarter Phishing Activity Trends Report, there are 55,282 new phishing websites have been detected in the month of July 2014. To solve the phishing problem, a browser based add-on system may be one of the best solution to aware the user about the website type. In this paper, a novel browser based add-on system is proposed and compared its performance with the existing antiphishing tools. The proposed anti-phishing tool ‘ePhish’ is compared with the existing browser based antiphishing toolbars. All the anti-phishing tools have been installed in computer systems at an autonomous college to check their performance. The obtained result shows that if the task is divided into a group of systems, it can give better results. For different phishing features, the add-on system tool show around 97 percentage successful results at different case conditions. The current study would be very helpful to countermeasure the phishing attach and the proposed system is able to protect the user by phishing attacks. Since the system tool is capable of handling and managing the phishing website details, so it would be helpful to identify the category of the websites.

  5. A Lifelog Browser for Visualization and Search of Mobile Everyday-Life

    Directory of Open Access Journals (Sweden)

    Keum-Sung Hwang

    2014-01-01

    Full Text Available Mobile devices can now handle a great deal of information thanks to the convergence of diverse functionalities. Mobile environments have already shown great potential in terms of providing customized service to users because they can record meaningful and private information continually for long periods of time. The research for understanding, searching and summarizing the everyday-life of human has received increasing attention in recent years due to the digital convergence. In this paper, we propose a mobile life browser, which visualizes and searches human's mobile life based on the contents and context of lifelog data. The mobile life browser is for searching the personal information effectively collected on his/her mobile device and for supporting the concept-based searching method by using concept networks and Bayesian networks. In the experiments, we collected the real mobile log data from three users for a month and visualized the mobile lives of the users with the mobile life browser developed. Some tests on searching tasks confirmed that the result using the proposed concept-based searching method is promising.

  6. EcoBrowser: a web-based tool for visualizing transcriptome data of Escherichia coli

    Directory of Open Access Journals (Sweden)

    Jia Peng

    2011-10-01

    Full Text Available Abstract Background Escherichia coli has been extensively studied as a prokaryotic model organism whose whole genome was determined in 1997. However, it is difficult to identify all the gene products involved in diverse functions by using whole genome sequencesalone. The high-resolution transcriptome mapping using tiling arrays has proved effective to improve the annotation of transcript units and discover new transcripts of ncRNAs. While abundant tiling array data have been generated, the lack of appropriate visualization tools to accommodate and integrate multiple sources of data has emerged. Findings EcoBrowser is a web-based tool for visualizing genome annotations and transcriptome data of E. coli. Important tiling array data of E. coli from different experimental platforms are collected and processed for query. An AJAX based genome browser is embedded for visualization. Thus, genome annotations can be compared with transcript profiling and genome occupancy profiling from independent experiments, which will be helpful in discovering new transcripts including novel mRNAs and ncRNAs, generating a detailed description of the transcription unit architecture, further providing clues for investigation of prokaryotic transcriptional regulation that has proved to be far more complex than previously thought. Conclusions With the help of EcoBrowser, users can get a systemic view both from the vertical and parallel sides, as well as inspirations for the design of new experiments which will expand our understanding of the regulation mechanism.

  7. Nessi: An EEG-Controlled Web Browser for Severely Paralyzed Patients

    Directory of Open Access Journals (Sweden)

    Michael Bensch

    2007-01-01

    Full Text Available We have previously demonstrated that an EEG-controlled web browser based on self-regulation of slow cortical potentials (SCPs enables severely paralyzed patients to browse the internet independently of any voluntary muscle control. However, this system had several shortcomings, among them that patients could only browse within a limited number of web pages and had to select links from an alphabetical list, causing problems if the link names were identical or if they were unknown to the user (as in graphical links. Here we describe a new EEG-controlled web browser, called Nessi, which overcomes these shortcomings. In Nessi, the open source browser, Mozilla, was extended by graphical in-place markers, whereby different brain responses correspond to different frame colors placed around selectable items, enabling the user to select any link on a web page. Besides links, other interactive elements are accessible to the user, such as e-mail and virtual keyboards, opening up a wide range of hypertext-based applications.

  8. Web-based visualization of gridded dataset usings OceanBrowser

    Science.gov (United States)

    Barth, Alexander; Watelet, Sylvain; Troupin, Charles; Beckers, Jean-Marie

    2015-04-01

    OceanBrowser is a web-based visualization tool for gridded oceanographic data sets. Those data sets are typically four-dimensional (longitude, latitude, depth and time). OceanBrowser allows one to visualize horizontal sections at a given depth and time to examine the horizontal distribution of a given variable. It also offers the possibility to display the results on an arbitrary vertical section. To study the evolution of the variable in time, the horizontal and vertical sections can also be animated. Vertical section can be generated by using a fixed distance from coast or fixed ocean depth. The user can customize the plot by changing the color-map, the range of the color-bar, the type of the plot (linearly interpolated color, simple contours, filled contours) and download the current view as a simple image or as Keyhole Markup Language (KML) file for visualization in applications such as Google Earth. The data products can also be accessed as NetCDF files and through OPeNDAP. Third-party layers from a web map service can also be integrated. OceanBrowser is used in the frame of the SeaDataNet project (http://gher-diva.phys.ulg.ac.be/web-vis/) and EMODNET Chemistry (http://oceanbrowser.net/emodnet/) to distribute gridded data sets interpolated from in situ observation using DIVA (Data-Interpolating Variational Analysis).

  9. Download - GenLibi | 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 ...ription Download License Update History of This Database Site Policy | Contact Us Download - GenLibi | LSDB Archive ...

  10. Download - Dicty_cDB | 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 ...atabase Description Download License Update History of This Database Site Policy | Contact Us Download - Dicty_cDB | LSDB Archive ...

  11. Download - KAIKOcDNA | 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 ...ad License Update History of This Database Site Policy | Contact Us Download - KAIKOcDNA | LSDB Archive ...

  12. License - RGP gmap98 | 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 ...nse Update History of This Database Site Policy | Contact Us License - RGP gmap98 | LSDB Archive ...

  13. License - RGP estmap2001 | 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 ...abase Description Download License Update History of This Database Site Policy | Contact Us License - RGP estmap2001 | LSDB Archive ...

  14. Hematology - Open TG-GATEs | 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 Open...base Description Download License Update History of This Database Site Policy | Contact Us Hematology - Open TG-GATEs | LSDB Archive ...

  15. Body weight - Open TG-GATEs | 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 Open...d License Update History of This Database Site Policy | Contact Us Body weight - Open TG-GATEs | LSDB Archive ...

  16. Download - Gene Name Thesaurus | 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 ...n Download License Update History of This Database Site Policy | Contact Us Download - Gene Name Thesaurus | LSDB Archive ...

  17. The linked list of data - RGP gmap98 | 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 ...abase Description Download License Update History of This Database Site Policy | Contact Us The linked list of data - RGP gmap98 | LSDB Archive ...

  18. Images on Comment (PNG format) - Taxonomy Icon | 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 ...n Download License Update History of This Database Site Policy | Contact Us Images on Comment (PNG format) - Taxonomy Icon | LSDB Archive ...

  19. The 2011 Nucleic Acids Research Database Issue and the online Molecular Biology Database Collection.

    Science.gov (United States)

    Galperin, Michael Y; Cochrane, Guy R

    2011-01-01

    The current 18th Database Issue of Nucleic Acids Research features descriptions of 96 new and 83 updated online databases covering various areas of molecular biology. It includes two editorials, one that discusses COMBREX, a new exciting project aimed at figuring out the functions of the 'conserved hypothetical' proteins, and one concerning BioDBcore, a proposed description of the 'minimal information about a biological database'. Papers from the members of the International Nucleotide Sequence Database collaboration (INSDC) describe each of the participating databases, DDBJ, ENA and GenBank, principles of data exchange within the collaboration, and the recently established Sequence Read Archive. A testament to the longevity of databases, this issue includes updates on the RNA modification database, Definition of Secondary Structure of Proteins (DSSP) and Homology-derived Secondary Structure of Proteins (HSSP) databases, which have not been featured here in >12 years. There is also a block of papers describing recent progress in protein structure databases, such as Protein DataBank (PDB), PDB in Europe (PDBe), CATH, SUPERFAMILY and others, as well as databases on protein structure modeling, protein-protein interactions and the organization of inter-protein contact sites. Other highlights include updates of the popular gene expression databases, GEO and ArrayExpress, several cancer gene databases and a detailed description of the UK PubMed Central project. The Nucleic Acids Research online Database Collection, available at: http://www.oxfordjournals.org/nar/database/a/, now lists 1330 carefully selected molecular biology databases. The full content of the Database Issue is freely available online at the Nucleic Acids Research web site (http://nar.oxfordjournals.org/).

  20. Probabilistic Databases

    CERN Document Server

    Suciu, Dan; Koch, Christop

    2011-01-01

    Probabilistic databases are databases where the value of some attributes or the presence of some records are uncertain and known only with some probability. Applications in many areas such as information extraction, RFID and scientific data management, data cleaning, data integration, and financial risk assessment produce large volumes of uncertain data, which are best modeled and processed by a probabilistic database. This book presents the state of the art in representation formalisms and query processing techniques for probabilistic data. It starts by discussing the basic principles for rep

  1. Database Replication

    CERN Document Server

    Kemme, Bettina

    2010-01-01

    Database replication is widely used for fault-tolerance, scalability and performance. The failure of one database replica does not stop the system from working as available replicas can take over the tasks of the failed replica. Scalability can be achieved by distributing the load across all replicas, and adding new replicas should the load increase. Finally, database replication can provide fast local access, even if clients are geographically distributed clients, if data copies are located close to clients. Despite its advantages, replication is not a straightforward technique to apply, and

  2. High Performance Database Management for Earth Sciences

    Science.gov (United States)

    Rishe, Naphtali; Barton, David; Urban, Frank; Chekmasov, Maxim; Martinez, Maria; Alvarez, Elms; Gutierrez, Martha; Pardo, Philippe

    1998-01-01

    The High Performance Database Research Center at Florida International University is completing the development of a highly parallel database system based on the semantic/object-oriented approach. This system provides exceptional usability and flexibility. It allows shorter application design and programming cycles and gives the user control via an intuitive information structure. It empowers the end-user to pose complex ad hoc decision support queries. Superior efficiency is provided through a high level of optimization, which is transparent to the user. Manifold reduction in storage size is allowed for many applications. This system allows for operability via internet browsers. The system will be used for the NASA Applications Center program to store remote sensing data, as well as for Earth Science applications.

  3. RDD Databases

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This database was established to oversee documents issued in support of fishery research activities including experimental fishing permits (EFP), letters of...

  4. Dealer Database

    Data.gov (United States)

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

  5. National database

    DEFF Research Database (Denmark)

    Kristensen, Helen Grundtvig; Stjernø, Henrik

    1995-01-01

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

  6. Database Description - BodyParts3D | 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 BodyParts...3D Database Description General information of database Database name BodyParts3D Alternative name ...eadily generate an anatomical image of human body by selecting body parts from BodyParts3D and setting desir...ed viewpoint, zoom, color and opacity. Background and funding MEXT Integrated Database Project Reference(s) Article title: BodyParts...ole data download http://dbarchive.biosciencedbc.jp/en/bodyparts3d/download.html Referenced database Foundat

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

    Lifescience Database Archive (English)

    Full Text Available Taxonomy Icon License License to Use This Database Last updated : 2013/3/21 You may use this database in com...s regarding the use of this database and the requirements you must follow in usin...g this database. The license for this database is specified in the Creative Commons Attribution 2.1 Japan . If you... of the Creative Commons Attribution 2.1 Japan is found here . With regard to this database, you are license...erivative works based on part or whole of the data from this database, under the license, as long as you com

  8. Automatically generating procedure code and database maintenance scripts

    Energy Technology Data Exchange (ETDEWEB)

    Hatley, J.W. [Sandia National Labs., Albuquerque, NM (United States). Information Technologies and Methodologies Dept.

    1994-10-01

    Over the past couple of years the Information Technology Department at Sandia Laboratories has developed software to automatically generate database/4gl procedure code and database maintenance scripts based on database table information. With this software developers simply enter table and referential integrity information and the software generates code and scripts as required. The generated procedure code includes simple insert/delete/update procedures, transaction logging procedures as well as referential integrity procedures. The generated database maintenance scripts include scripts to modify structures, update remote databases, create views, and create indexes. Additionally, the software can generate EPSI representations of Binder diagrams for the tables. This paper will discuss the software application and use of it in real world applications. The automated generation of procedure code and maintenance scripts allows the developers to concentrate on the development of user interface code. The technique involves generating database/4 gl procedure code and maintenance scripts automatically from the database table information. The database/4gl procedure code provides standard insert/update/delete interfaces for upper level code as well as enforces the data constraints defined in the information model. The maintenance scripts provide maintenance scripts and migration scripts. This has resulted in fully updated database applications with complete rules enforcement and database maintenance scripts within days of a database modification.

  9. ARTI refrigerant database

    Energy Technology Data Exchange (ETDEWEB)

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

    1998-08-01

    The Refrigerant Database is an information system on alternative refrigerants, associated lubricants, and their use in air conditioning and refrigeration. It consolidates and facilitates access to property, compatibility, environmental, safety, application and other information. It provides corresponding information on older refrigerants, to assist manufactures and those using alternative refrigerants, to make comparisons and determine differences. The underlying purpose is to accelerate phase out of chemical compounds of environmental concern. The database provides bibliographic citations and abstracts for publications that may be useful in research and design of air-conditioning and refrigeration equipment. The complete documents are not included, though some may be added at a later date. The database identifies sources of specific information on many refrigerants including propane, ammonia, water, carbon dioxide, propylene, ethers, and others as well as azeotropic and zeotropic blends of these fluids. It addresses lubricants including alkylbenzene, polyalkylene glycol, polyolester, and other synthetics as well as mineral oils. It also references documents addressing compatibility of refrigerants and lubricants with metals, plastics, elastomers, motor insulation, and other materials used in refrigerant circuits. Incomplete citations or abstracts are provided for some documents. They are included to accelerate availability of the information and will be completed or replaced in future updates.

  10. ARTI Refrigerant Database

    Energy Technology Data Exchange (ETDEWEB)

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

    1993-04-30

    The Refrigerant Database consolidates and facilitates access to information to assist industry in developing equipment using alternative refrigerants. The underlying purpose is to accelerate phase out of chemical compounds of environmental concern. The database provides bibliographic citations and abstracts for publications that may be useful in research and design of air-conditioning and refrigeration equipment. The complete documents are not included. The database identifies sources of specific information on R-32, R-123, R-124, R-125, R-134, R-134a, R-141b, R-142b, R-143a, R-152a, R-245ca, R-290 (propane), R-717 (ammonia), ethers, and others as well as azeotropic and zeotropic blends of these fluids. It addresses lubricants including alkylbenzene, polyalkylene glycol, ester, and other synthetics as well as mineral oils. It also references documents addressing compatibility of refrigerants and lubricants with metals, plastics, elastomers, motor insulation, and other materials used in refrigerant circuits. Incomplete citations or abstracts are provided for some documents to accelerate availability of the information and will be completed or replaced in future updates.

  11. ARTI refrigerant database

    Energy Technology Data Exchange (ETDEWEB)

    Calm, J.M.

    1997-02-01

    The Refrigerant Database is an information system on alternative refrigerants, associated lubricants, and their use in air conditioning and refrigeration. It consolidates and facilitates access to property, compatibility, environmental, safety, application and other information. It provides corresponding information on older refrigerants, to assist manufacturers and those using alterative refrigerants, to make comparisons and determine differences. The underlying purpose is to accelerate phase out of chemical compounds of environmental concern. The database provides bibliographic citations and abstracts for publications that may be useful in research and design of air-conditioning and refrigeration equipment. The complete documents are not included, though some may be added at a later date. The database identifies sources of specific information on various refrigerants. It addresses lubricants including alkylbenzene, polyalkylene glycol, polyolester, and other synthetics as well as mineral oils. It also references documents addressing compatibility of refrigerants and lubricants with metals, plastics, elastomers, motor insulation, and other materials used in refrigerant circuits. Incomplete citations or abstracts are provided for some documents. They are included to accelerate availability of the information and will be completed or replaced in future updates.

  12. Primary Numbers Database for ATLAS Detector Description Parameters

    CERN Document Server

    Vaniachine, A; Malon, D; Nevski, P; Wenaus, T

    2003-01-01

    We present the design and the status of the database for detector description parameters in ATLAS experiment. The ATLAS Primary Numbers are the parameters defining the detector geometry and digitization in simulations, as well as certain reconstruction parameters. Since the detailed ATLAS detector description needs more than 10,000 such parameters, a preferred solution is to have a single verified source for all these data. The database stores the data dictionary for each parameter collection object, providing schema evolution support for object-based retrieval of parameters. The same Primary Numbers are served to many different clients accessing the database: the ATLAS software framework Athena, the Geant3 heritage framework Atlsim, the Geant4 developers framework FADS/Goofy, the generator of XML output for detector description, and several end-user clients for interactive data navigation, including web-based browsers and ROOT. The choice of the MySQL database product for the implementation provides addition...

  13. Web browsers forensic analysis reviewWeb tarayıcılarda adli analiz incelemesi

    Directory of Open Access Journals (Sweden)

    Erkan Baran

    2015-09-01

    Full Text Available Nowadays, web browser tools are seen ıntensıvely durıng the usage of web applıcatıons. Because of that, browsers provıdes ınfrastructure of a largo majorıty of crımes. Because guılty or suspect can use the browsers to collect ınformatıons, to hıde hıs crıme, learn new crımınal methods or to apply they have learned. In thıs study, ıt ıs also seeked answers of how a process can be monıtored on the computers whıch are used on browsers, ın whıch fıles whıch datas are looked and when and whıch sıtes are accessed. Accordıng to research of W3counter web stats tool, Chrome Web browser, whıch has %43 persentage of across the world ın usage, ıs proses as the most demanded browser ın thıs study by users, and ıt ıs scented out ın thıs browser's related fıles. In these days, ''hıdden mode'' whıch take part ın vast majorıty of browsers ıs also examıned. Thıs feature of the browser, whıch ıs receıved reference, ıs tracked by testıng and ıs sought data ın RAM memory and fıle systems. Thus, '' hıdden mode'' effects are dıscussed ın provıdıng studıes about suspect or crımınal posıtıon people, what kınd of data can be obtaıned ın usıng '' hıdden mode” ıs revealed.   Özet Günümüzde internet uygulamalarının kullanımı sırasında web tarayıcı araçlarının yoğun bir şekilde kullanımı görülmektedir. Bu nedenle tarayıcılar, işlenen suçların büyük bir çoğunluğuna altyapı sağlar. Çünkü suçlu ya da şüpheli, tarayıcıları bilgi toplamak, suçunu gizlemek, yeni suç metotları öğrenmek ya da öğrendiklerini uygulamak için kullanabilir.  Bu çalışmada da tarayıcıların kullanıldığı bilgisayarlar üzerinde bırakılan izlerin tespitinde nasıl bir süreç izlenebileceği, hangi dosyalarda hangi verilere bakılabileceği ve ne zaman hangi sitelere erişim sağlandığı gibi çeşitli sorulara cevaplar aranmaktadır. w3counter adlı internet istatistik

  14. 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.

  15. UPDATED OKLAHOMA OZARK FLORA: A Checklist for the Vascular Flora of Ozark Plateau in Oklahoma based on the work of C.S. Wallis and records from the Oklahoma Vascular Plants Database

    Directory of Open Access Journals (Sweden)

    Bruce W. Hoagland

    2007-12-01

    Full Text Available Charles Wallis’ 1959 dissertation “Vascular Plants of the Oklahoma Ozarks” is one of the most important florisitic works for state botanists and conservationists. Although a number of local and county floras for Oklahoma have been published, only Wallis and C. T. Eskew (1937 have completed regional studies. Wallis’s interest in the Ozark flora began with his 1953 masters thesis, “The Spermophyta of Cherokee County Oklahoma,” and subsequent studies in collaboration with U. T. Waterfall at Oklahoma A&M (Wallis 1957; Wallis and Waterfall 1953; Waterfall and Wallis 1962, 1963. This paper has two objectives, to update the taxonomy of Wallis’s Ozark list (WOL and to provide a current Ozark checklist (OC by inclusion of records that did not appear in WOL. Since several decades have passed since the WOL was completed, there have been many changes in the taxonomy of the plants listed. These updates will enhance the utility of the WOL for modern users and not detract from Wallis’s original work.

  16. Design and Implementation of a Safe Browser based on WebKit Engine onAndroid Platform%Android平台上基于WebKit引擎的安全浏览器的设计与实现

    Institute of Scientific and Technical Information of China (English)

    吴昊; 文伟平; 严寒冰

    2012-01-01

      Cyber-attacks, especially phishing attacks were studied, and a phishing attack model was established. A model of secure mobile terminal browsing service and the updating policy of phishing URL blacklist were designed. The details of secure browsing service, the client/server communication protocols and the data structures were described. This part is the important foundation to achieve a secure browser application. On the basis of secure browsing protocol, a complete secure browser application was implemented. The browser provides a very useful secure browsing application service for Android platform users.%  文章针对当前网络攻击技术尤其是网络钓鱼攻击的技术,提出并建立了攻击模型。针对攻击模型,文章设计了移动终端安全浏览服务的模型和恶意网址黑名单更新策略,对安全浏览服务及其客户端/服务器端的通信协议及相关数据结构进行了详细的阐述。在安全浏览服务协议的基础上,文章设计并实现了Android平台上的安全浏览器,为Android平台用户提供了有价值的安全浏览应用服务。

  17. The 2010 Nucleic Acids Research Database Issue and online Database Collection: a community of data resources.

    Science.gov (United States)

    Cochrane, Guy R; Galperin, Michael Y

    2010-01-01

    The current issue of Nucleic Acids Research includes descriptions of 58 new and 73 updated data resources. The accompanying online Database Collection, available at http://www.oxfordjournals.org/nar/database/a/, now lists 1230 carefully selected databases covering various aspects of molecular and cell biology. While most data resource descriptions remain very brief, the issue includes several longer papers that highlight recent significant developments in such databases as Pfam, MetaCyc, UniProt, ELM and PDBe. The databases described in the Database Issue and Database Collection, however, are far more than a distinct set of resources; they form a network of connected data, concepts and shared technology. The full content of the Database Issue is available online at the Nucleic Acids Research web site (http://nar.oxfordjournals.org/).

  18. License - RMG | 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 RMG License Lice...ith the terms and conditions of the license described below. The license specifies the license terms regardi...ng the use of this database and the requirements you must follow in using this database. The lice.... If you use data from this database, please be sure attribute this database as follows: Rice Mitochondrial ...Genome © National Institute of Agrobiological Sciences licensed under CC Attribut

  19. Research on Topographic Map Updating

    Directory of Open Access Journals (Sweden)

    Ivana Javorović

    2013-04-01

    Full Text Available The investigation of interpretability of panchromatic satellite image IRS-1C integrated with multispectral Landsat TM image with the purpose of updating the topographic map sheet at the scale of 1:25 000 has been described. The geocoding of source map was based on trigonometric points of the map sheet. Satellite images were geocoded using control points selected from the map. The contents of map have been vectorized and topographic database designed. The digital image processing improved the interpretability of images. Then, the vectorization of new contents was made. The change detection of the forest and water area was defined by using unsupervised classification of spatial and spectral merged images. Verification of the results was made using corresponding aerial photographs. Although this methodology could not insure the complete updating of topographic map at the scale of 1:25 000, the database has been updated with huge amount of data. Erdas Imagine 8.3. software was used. 

  20. JavaScript Access to DICOM Network and Objects in Web Browser.

    Science.gov (United States)

    Drnasin, Ivan; Grgić, Mislav; Gogić, Goran

    2017-01-30

    Digital imaging and communications in medicine (DICOM) 3.0 standard provides the baseline for the picture archiving and communication systems (PACS). The development of Internet and various communication media initiated demand for non-DICOM access to PACS systems. Ever-increasing utilization of the web browsers, laptops and handheld devices, as opposed to desktop applications and static organizational computers, lead to development of different web technologies. The DICOM standard officials accepted those subsequently as tools of alternative access. This paper provides an overview of the current state of development of the web access technology to the DICOM repositories. It presents a different approach of using HTML5 features of the web browsers through the JavaScript language and the WebSocket protocol by enabling real-time communication with DICOM repositories. JavaScript DICOM network library, DICOM to WebSocket proxy and a proof-of-concept web application that qualifies as a DICOM 3.0 device were developed.

  1. Seed dispersers, seed predators, and browsers act synergistically as biotic filters in a mosaic landscape.

    Directory of Open Access Journals (Sweden)

    Regino Zamora

    Full Text Available In this study, we analize the functional influence of animals on the plants they interact with in a mediterranean mountain. We hypothesise that seed dispersers, seed predators, and browsers can act as biotic filters for plant communities. We analyse the combined effects of mutualistic (seed dispersal and antagonistic (seed predation, herbivory animal interactions in a mosaic landscape of Mediterranean mountains, basing our results on observational and experimental field. Most of the dispersed seeds came from tree species, whereas the population of saplings was composed predominantly of zoochorous shrub species. Seed predators preferentially consumed seeds from tree species, whereas seeds from the dominant fleshy-fruited shrubs had a higher probability of escaping these predators. The same pattern was repeated among the different landscape units by browsers, since they browsed selectively and far more intensely on tree-species saplings than on the surrounding shrubs. In synthesis, our work identifies the major biotic processes that appear to be favoring a community dominated by shrubs versus trees because seed dispersers, predators, and herbivores together favored shrub dispersal and establishment versus trees.

  2. EntrezAJAX: direct web browser access to the Entrez Programming Utilities

    Directory of Open Access Journals (Sweden)

    Pallen Mark J

    2010-06-01

    Full Text Available Abstract Web applications for biology and medicine often need to integrate data from Entrez services provided by the National Center for Biotechnology Information. However, direct access to Entrez from a web browser is not possible due to 'same-origin' security restrictions. The use of "Asynchronous JavaScript and XML" (AJAX to create rich, interactive web applications is now commonplace. The ability to access Entrez via AJAX would be advantageous in the creation of integrated biomedical web resources. We describe EntrezAJAX, which provides access to Entrez eUtils and is able to circumvent same-origin browser restrictions. EntrezAJAX is easily implemented by JavaScript developers and provides identical functionality as Entrez eUtils as well as enhanced functionality to ease development. We provide easy-to-understand developer examples written in JavaScript to illustrate potential uses of this service. For the purposes of speed, reliability and scalability, EntrezAJAX has been deployed on Google App Engine, a freely available cloud service. The EntrezAJAX webpage is located at http://entrezajax.appspot.com/

  3. A Human "eFP" Browser for Generating Gene Expression Anatograms.

    Directory of Open Access Journals (Sweden)

    Rohan V Patel

    Full Text Available Transcriptomic studies help to further our understanding of gene function. Human transcriptomic studies tend to focus on a particular subset of tissue types or a particular disease state; however, it is possible to collate into a compendium multiple studies that have been profiled using the same expression analysis platform to provide an overview of gene expression levels in many different tissues or under different conditions. In order to increase the knowledge and understanding we gain from such studies, intuitive visualization of gene expression data in such a compendium can be useful. The Human eFP ("electronic Fluorescent Pictograph" Browser presented here is a tool for intuitive visualization of large human gene expression data sets on pictographic representations of the human body as gene expression "anatograms". Pictographic representations for new data sets may be generated easily. The Human eFP Browser can also serve as a portal to other gene-specific information through link-outs to various online resources.

  4. NemaCount: quantification of nematode chemotaxis behavior in a browser.

    Science.gov (United States)

    O'Halloran, Damien M

    2016-06-01

    Nematodes such as Caenorhabditis elegans offer a very effective and tractable system to probe the underlying mechanisms of diverse sensory behaviors. Numerous platforms exist for quantifying nematode behavior and often require separate dependencies or software. Here I describe a novel and simple tool called NemaCount that provides a versatile solution for the quantification of nematode chemotaxis behavior. The ease of installation and user-friendly interface makes NemaCount a practical tool for measuring diverse behaviors and image features of nematodes such as C. elegans. The main advantage of NemaCount is that it operates from within a modern browser such as Google Chrome or Apple Safari. Any features that change in total number, size, shape, or angular distance between control and experimental preparations are suited to NemaCount for image analysis, while commonly used chemotaxis assays can be quantified, and statistically analyzed using a suite of functions from within NemaCount. NemaCount also offers image filtering options that allow the user to improve object detection and measurements. NemaCount was validated by examining nematode chemotaxis behavior; angular distances of locomotory tracks in C. elegans; and body lengths of Heterorhabditis bacteriophora nematodes. Apart from a modern browser, no additional software is required to operate NemaCount, making NemaCount a cheap, simple option for the analysis of nematode images and chemotaxis behavior.

  5. Properties and Update Semantics of Consistent Views

    Science.gov (United States)

    1985-09-01

    8217 PR.OPERTIES AND UPDATE SEMANTICS OF CONSISTENT VIEWS G. Gottlob Institute for Applied Mathematics C.N.H.., G<•nova, Italy Compnt.<•r Sden... Gottlob G., Paolini P., Zicari R., "Proving Properties of Programs ou Database Views", Dipartiuwnto di Elcttronica, Politecnko di Milano (in

  6. Data correction on July 4th, 2012 - Open TG-GATEs | 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 Open...chemistry open_tggates_biochemistry.zip (666 KB) Simple search and download CEL file attachments Open...bout This Database Database Description Download License Update History of This Database Site Policy | Contact Us Data correction on July 4th, 2012 - Open TG-GATEs | LSDB Archive ...

  7. Main data - RMG | 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 ...to the public. Data file File name: rmg_main.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rmg/LATEST/rmg...Description Download License Update History of This Database Site Policy | Contact Us Main data - RMG | LSDB Archive ...

  8. Genome annotations - KOME | 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 ....zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_genome_annotat...e Update History of This Database Site Policy | Contact Us Genome annotations - KOME | LSDB Archive ...

  9. ORF information - KOME | 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 ...e longest ORFs Data file File name: kome_orf_infomation.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kom...e Description Download License Update History of This Database Site Policy | Contact Us ORF information - KOME | LSDB Archive ...

  10. Main - KOME | 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 ..._main.zip File URL: ftp://ftp.biosciencedbc.jp/archive/kome/LATEST/kome_main.zip File size: 1.3 KB Simple se... Download License Update History of This Database Site Policy | Contact Us Main - KOME | LSDB Archive ...

  11. Varieties of update

    Directory of Open Access Journals (Sweden)

    Sarah E Murray

    2014-03-01

    Full Text Available This paper discusses three potential varieties of update: updates to the common ground, structuring updates, and updates that introduce discourse referents. These different types of update are used to model different aspects of natural language phenomena. Not-at-issue information directly updates the common ground. The illocutionary mood of a sentence structures the context. Other updates introduce discourse referents of various types, including propositional discourse referents for at-issue information. Distinguishing these types of update allows a unified treatment of a broad range of phenomena, including the grammatical evidentials found in Cheyenne (Algonquian as well as English evidential parentheticals, appositives, and mood marking. An update semantics that can formalize all of these varieties of update is given, integrating the different kinds of semantic contributions into a single representation of meaning. http://dx.doi.org/10.3765/sp.7.2 BibTeX info

  12. The Small Bodies Imager Browser --- finding asteroid and comet images without pain

    Science.gov (United States)

    Palmer, E.; Sykes, M.; Davis, D.; Neese, C.

    2014-07-01

    To facilitate accessing and downloading spatially resolved imagery of asteroids and comets in the NASA Planetary Data System (PDS), we have created the Small Bodies Image Browser. It is a HTML5 webpage that runs inside a standard web browser needing no installation (http://sbn.psi.edu/sbib/). The volume of data returned by spacecraft missions has grown substantially over the last decade. While this wealth of data provides scientists with ample support for research, it has greatly increased the difficulty of managing, accessing and processing these data. Further, the complexity necessary for a long-term archive results in an architecture that is efficient for computers, but not user friendly. The Small Bodies Image Browser (SBIB) is tied into the PDS archive of the Small Bodies Asteroid Subnode hosted at the Planetary Science Institute [1]. Currently, the tool contains the entire repository of the Dawn mission's encounter with Vesta [2], and we will be adding other datasets in the future. For Vesta, this includes both the level 1A and 1B images for the Framing Camera (FC) and the level 1B spectral cubes from the Visual and Infrared (VIR) spectrometer, providing over 30,000 individual images. A key strength of the tool is providing quick and easy access of these data. The tool allows for searches based on clicking on a map or typing in coordinates. The SBIB can show an entire mission phase (such as cycle 7 of the Low Altitude Mapping Orbit) and the associated footprints, as well as search by image name. It can focus the search by mission phase, resolution or instrument. Imagery archived in the PDS are generally provided by missions in a single or narrow range of formats. To enhance the value and usability of this data to researchers, SBIB makes these available in these original formats as well as PNG, JPEG and ArcGIS compatible ISIS cubes [3]. Additionally, we provide header files for the VIR cubes so they can be read into ENVI without additional processing. Finally

  13. Database Cleanup: Errors in the Catalog.

    Science.gov (United States)

    Trombly, Susan T.

    2001-01-01

    Discusses the need for libraries to clean up their catalog databases to eliminate duplicate entries, update bibliographic or authority records, and correct errors. Reviews pertinent literature and considers methods that include human review as well as software and matching programs. (LRW)

  14. A Regional Bibliographic Database on Videodisc.

    Science.gov (United States)

    Freund, Alfred L.

    1985-01-01

    Provides description of the initial creation of a regional union catalog containing 600,000 unique titles and 1.8 million physical items, the conversion of this database to interactive laserdisc, and the resultant advantages. Updates, costs, problems, and the application of laserdisc technology are discussed. (EJS)

  15. Biochemistry - Open TG-GATEs | 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 ...y.zip File URL: ftp://ftp.biosciencedbc.jp/archive/open-tggates/LATEST/open_tggat...e Database Description Download License Update History of This Database Site Policy | Contact Us Biochemistry - Open TG-GATEs | LSDB Archive ...

  16. EST Table - KAIKOcDNA | 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 ...ber 2011. Data file File name: kaiko_cdna_main.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...atabase Database Description Download License Update History of This Database Site Policy | Contact Us EST Table - KAIKOcDNA | LSDB Archive ...

  17. Flux: FunctionaL Updates for XML (extended report)

    CERN Document Server

    Cheney, James

    2008-01-01

    XML database query languages have been studied extensively, but XML database updates have received relatively little attention, and pose many challenges to language design. We are developing an XML update language called Flux, which stands for FunctionaL Updates for XML, drawing upon ideas from functional programming languages. In prior work, we have introduced a core language for Flux with a clear operational semantics and a sound, decidable static type system based on regular expression types. Our initial proposal had several limitations. First, it lacked support for recursive types or update procedures. Second, although a high-level source language can easily be translated to the core language, it is difficult to propagate meaningful type errors from the core language back to the source. Third, certain updates are well-formed yet contain path errors, or ``dead'' subexpressions which never do any useful work. It would be useful to detect path errors, since they often represent errors or optimization opportu...

  18. SpliceDisease database: linking RNA splicing and disease.

    Science.gov (United States)

    Wang, Juan; Zhang, Jie; Li, Kaibo; Zhao, Wei; Cui, Qinghua

    2012-01-01

    RNA splicing is an important aspect of gene regulation in many organisms. Splicing of RNA is regulated by complicated mechanisms involving numerous RNA-binding proteins and the intricate network of interactions among them. Mutations in cis-acting splicing elements or its regulatory proteins have been shown to be involved in human diseases. Defects in pre-mRNA splicing process have emerged as a common disease-causing mechanism. Therefore, a database integrating RNA splicing and disease associations would be helpful for understanding not only the RNA splicing but also its contribution to disease. In SpliceDisease database, we manually curated 2337 splicing mutation disease entries involving 303 genes and 370 diseases, which have been supported experimentally in 898 publications. The SpliceDisease database provides information including the change of the nucleotide in the sequence, the location of the mutation on the gene, the reference Pubmed ID and detailed description for the relationship among gene mutations, splicing defects and diseases. We standardized the names of the diseases and genes and provided links for these genes to NCBI and UCSC genome browser for further annotation and genomic sequences. For the location of the mutation, we give direct links of the entry to the respective position/region in the genome browser. The users can freely browse, search and download the data in SpliceDisease at http://cmbi.bjmu.edu.cn/sdisease.

  19. GrayStarServer: Server-side Spectrum Synthesis with a Browser-based Client-side User Interface

    Science.gov (United States)

    Short, C. Ian

    2016-10-01

    We present GrayStarServer (GSS), a stellar atmospheric modeling and spectrum synthesis code of pedagogical accuracy that is accessible in any web browser on commonplace computational devices and that runs on a timescale of a few seconds. The addition of spectrum synthesis annotated with line identifications extends the functionality and pedagogical applicability of GSS beyond that of its predecessor, GrayStar3 (GS3). The spectrum synthesis is based on a line list acquired from the NIST atomic spectra database, and the GSS post-processing and user interface client allows the user to inspect the plain text ASCII version of the line list, as well as to apply macroscopic broadening. Unlike GS3, GSS carries out the physical modeling on the server side in Java, and communicates with the JavaScript and HTML client via an asynchronous HTTP request. We also describe other improvements beyond GS3 such as a more physical treatment of background opacity and atmospheric physics, the comparison of key results with those of the Phoenix code, and the use of the HTML element for higher quality plotting and rendering of results. We also present LineListServer, a Java code for converting custom ASCII line lists in NIST format to the byte data type file format required by GSS so that users can prepare their own custom line lists. We propose a standard for marking up and packaging model atmosphere and spectrum synthesis output for data transmission and storage that will facilitate a web-based approach to stellar atmospheric modeling and spectrum synthesis. We describe some pedagogical demonstrations and exercises enabled by easily accessible, on-demand, responsive spectrum synthesis. GSS may serve as a research support tool by providing quick spectroscopic reconnaissance. GSS may be found at www.ap.smu.ca/~ishort/OpenStars/GrayStarServer/grayStarServer.html, and source tarballs for local installations of both GSS and LineListServer may be found at www.ap.smu.ca/~ishort/OpenStars/.

  20. ROOT I/O in Javascript - Reading ROOT files in a browser

    CERN Document Server

    CERN. Geneva

    2012-01-01

    A JavaScript version of the ROOT I/O subsystem is being developed, in order to be able to browse (inspect) ROOT files in a platform independent way. This allows the content of ROOT files to be displayed in most web browsers, without having to install ROOT or any other software on the server or on the client. This gives a direct access to ROOT files from new (e.g. portable) devices in a light way. It will be possible to display simple graphical objects such as histograms and graphs (TH1, TH2, TH3, TProfile, TGraph, ...). The rendering will first be done with an external JavaScript graphic library, before investigating a way to produce graphics closer to what ROOT supports on other platforms (X11, Windows).

  1. Building a Better Book in the Browser (Using Semantic Web technologies and HTML5

    Directory of Open Access Journals (Sweden)

    Jason A. Clark

    2015-07-01

    Full Text Available The library as place and service continues to be shaped by the legacy of the book. The book itself has evolved in recent years, with various technologies vying to become the next dominant book form. In this article, we discuss the design and development of our prototype software from Montana State University (MSU Library for presenting books inside of web browsers. The article outlines the contextual background and technological potential for publishing traditional book content through the web using open standards. Our prototype demonstrates the application of HTML5, structured data with RDFa and Schema.org markup, linked data components using JSON-LD, and an API-driven data model. We examine how this open web model impacts discovery, reading analytics, eBook production, and machine-readability for libraries considering how to unite software development and publishing.

  2. iPiG: integrating peptide spectrum matches into genome browser visualizations.

    Directory of Open Access Journals (Sweden)

    Mathias Kuhring

    Full Text Available Proteogenomic approaches have gained increasing popularity, however it is still difficult to integrate mass spectrometry identifications with genomic data due to differing data formats. To address this difficulty, we introduce iPiG as a tool for the integration of peptide identifications from mass spectrometry experiments into existing genome browser visualizations. Thereby, the concurrent analysis of proteomic and genomic data is simplified and proteomic results can directly be compared to genomic data. iPiG is freely available from https://sourceforge.net/projects/ipig/. It is implemented in Java and can be run as a stand-alone tool with a graphical user-interface or integrated into existing workflows. Supplementary data are available at PLOS ONE online.

  3. A Security Concern in MS-Windows: Stealing User Information From Internet Browsers Using Faked Windows

    Directory of Open Access Journals (Sweden)

    Lior Shamir

    2006-04-01

    Full Text Available A simple method that might be used by malicious attackers for stealing usernames, passwords, credit card numbers or other valuable small pieces of information is described. Hidden processes running on Windows-based machines might create faked controls and place them on the browser exactly on top of the real controls of web pages such as on-line banking account login pages. Users might then type in their passwords or credit card numbers into the faked controls, allowing the malicious process to capture the data. Since spyware is a large and growing threat to internet users, it is not unlikely that such a technique will be used for stealing valuable information. An example based on Hotmail web-based email service is demonstrated, but this technique might be used for a variety of password-protected web services. The paper also discusses different approach of protection against the described attack.

  4. nodeGame: Real-time, synchronous, online experiments in the browser.

    Science.gov (United States)

    Balietti, Stefano

    2016-11-18

    nodeGame is a free, open-source JavaScript/ HTML5 framework for conducting synchronous experiments online and in the lab directly in the browser window. It is specifically designed to support behavioral research along three dimensions: (i) larger group sizes, (ii) real-time (but also discrete time) experiments, and (iii) batches of simultaneous experiments. nodeGame has a modular source code, and defines an API (application programming interface) through which experimenters can create new strategic environments and configure the platform. With zero-install, nodeGame can run on a great variety of devices, from desktop computers to laptops, smartphones, and tablets. The current version of the software is 3.0, and extensive documentation is available on the wiki pages at http://nodegame.org .

  5. Analysing Power Consumption Of Different Browsers & Identity Management Systems In Mobile Phones

    Directory of Open Access Journals (Sweden)

    Md. Sadek Ferdous

    2012-04-01

    Full Text Available Currently there are many different Identity Management Systems which differ in their architectures as well as use different protocols and serve different purposes and are extensively used by organisations to provide online services. With the remarkable growth of mobile phones in the last few years, both in number and computational power, more and more users are accessing an array of online services using their mobile phones. One of the major concerns for the user of mobile phones is the battery life which is limited and tends to run out quickly. Hence, efficiency in power consumption is a crucial factor for any system when it is accessed using a mobile phone. In this paper, we analyse the efficiency, in terms ofpower consumption, of different browsers in mobile phones and different Identity Management Systems when the mobile phones are used to access online services protected by those Identity Management Systems.

  6. Managing Multiuser Database Buffers Using Data Mining Techniques

    NARCIS (Netherlands)

    Feng, L.; Lu, H.J.

    2004-01-01

    In this paper, we propose a data-mining-based approach to public buffer management for a multiuser database system, where database buffers are organized into two areas – public and private. While the private buffer areas contain pages to be updated by particular users, the public buffe

  7. LHCb Conditions Database Operation Assistance Systems

    CERN Multimedia

    Shapoval, Illya

    2012-01-01

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

  8. The 2015 Nucleic Acids Research Database Issue and molecular biology database collection.

    Science.gov (United States)

    Galperin, Michael Y; Rigden, Daniel J; Fernández-Suárez, Xosé M

    2015-01-01

    The 2015 Nucleic Acids Research Database Issue contains 172 papers that include descriptions of 56 new molecular biology databases, and updates on 115 databases whose descriptions have been previously published in NAR or other journals. Following the classification that has been introduced last year in order to simplify navigation of the entire issue, these articles are divided into eight subject categories. This year's highlights include RNAcentral, an international community portal to various databases on noncoding RNA; ValidatorDB, a validation database for protein structures and their ligands; SASBDB, a primary repository for small-angle scattering data of various macromolecular complexes; MoonProt, a database of 'moonlighting' proteins, and two new databases of protein-protein and other macromolecular complexes, ComPPI and the Complex Portal. This issue also includes an unusually high number of cancer-related databases and other databases dedicated to genomic basics of disease and potential drugs and drug targets. The size of NAR online Molecular Biology Database Collection, http://www.oxfordjournals.org/nar/database/a/, remained approximately the same, following the addition of 74 new resources and removal of 77 obsolete web sites. The entire Database Issue is freely available online on the Nucleic Acids Research web site (http://nar.oxfordjournals.org/).

  9. Breast Cancer Research Update

    Science.gov (United States)

    ... JavaScript on. Feature: Breast Cancer Breast Cancer Research Update Winter 2017 Table of Contents National Cancer Institute ... Addressing Breast Cancer's Unequal Burden / Breast Cancer Research Update Winter 2017 Issue: Volume 11 Number 4 Page ...

  10. The Danish Collaborative Bacteraemia Network (DACOBAN) database

    DEFF Research Database (Denmark)

    Gradel, Kim Oren; Schønheyder, Henrik Carl; Arpi, Magnus

    2014-01-01

    enables linkage to additional registries for specific research projects. The DACOBAN database is continuously updated, and it currently comprises 39,292 patients with 49,951 bacteremic episodes from 2000 through 2011. The database is part of an international network of population-based bacteremia......The Danish Collaborative Bacteraemia Network (DACOBAN) research database includes microbiological data obtained from positive blood cultures from a geographically and demographically well-defined population serviced by three clinical microbiology departments (1.7 million residents, 32......% of the Danish population). The database also includes data on comorbidity from the Danish National Patient Registry, vital status from the Danish Civil Registration System, and clinical data on 31% of nonselected records in the database. Use of the unique civil registration number given to all Danish residents...

  11. Performance analysis of different database in new internet mapping system

    Science.gov (United States)

    Yao, Xing; Su, Wei; Gao, Shuai

    2017-03-01

    In the Mapping System of New Internet, Massive mapping entries between AID and RID need to be stored, added, updated, and deleted. In order to better deal with the problem when facing a large number of mapping entries update and query request, the Mapping System of New Internet must use high-performance database. In this paper, we focus on the performance of Redis, SQLite, and MySQL these three typical databases, and the results show that the Mapping System based on different databases can adapt to different needs according to the actual situation.

  12. SmallSat Database

    Science.gov (United States)

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

    2015-01-01

    The SmallSat has an unrealized potential in both the private industry and in the federal government. Currently over 70 companies, 50 universities and 17 governmental agencies are involved in SmallSat research and development. In 1994, the U.S. Army Missile and Defense mapped the moon using smallSat imagery. Since then Smart Phones have introduced this imagery to the people of the world as diverse industries watched this trend. The deployment cost of smallSats is also greatly reduced compared to traditional satellites due to the fact that multiple units can be deployed in a single mission. Imaging payloads have become more sophisticated, smaller and lighter. In addition, the growth of small technology obtained from private industries has led to the more widespread use of smallSats. This includes greater revisit rates in imagery, significantly lower costs, the ability to update technology more frequently and the ability to decrease vulnerability of enemy attacks. The popularity of smallSats show a changing mentality in this fast paced world of tomorrow. What impact has this created on the NASA communication networks now and in future years? In this project, we are developing the SmallSat Relational Database which can support a simulation of smallSats within the NASA SCaN Compatability Environment for Networks and Integrated Communications (SCENIC) Modeling and Simulation Lab. The NASA Space Communications and Networks (SCaN) Program can use this modeling to project required network support needs in the next 10 to 15 years. The SmallSat Rational Database could model smallSats just as the other SCaN databases model the more traditional larger satellites, with a few exceptions. One being that the smallSat Database is designed to be built-to-order. The SmallSat database holds various hardware configurations that can be used to model a smallSat. It will require significant effort to develop as the research material can only be populated by hand to obtain the unique data

  13. Home | 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 ...s even true for databases with high-quality datasets. The Life Science Database Archiv...te as national public goods. The Archive makes it easier for many people to search datasets by metadata (des...s with clear terms of use (see here for detailed descriptions). In addition, the Archive provides datasets i...r contribution of each research to life science. Lifescience Database Archive Archiv

  14. AcEST Contig - AcEST | 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 ...contig.zip File URL: ftp://ftp.biosciencedbc.jp/archive/acest/LATEST/acestcontig....zip File size: 1.34MB Simple search URL http://togodb.biosciencedbc.jp/togodb/view/archive_acestcontig#en Da...Joomla SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us AcEST Contig - AcEST | LSDB Archive ...

  15. Nuclear-like Seq in mt Genome - RMG | 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 RMG Nuclear...-like Seq in mt Genome Data detail Data name Nuclear-like Seq in mt Genome Description of data co...t This Database Database Description Download License Update History of This Database Site Policy | Contact Us Nuclear-like Seq in mt Genome - RMG | LSDB Archive ...

  16. Download - Open TG-GATEs | 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 Open...e data #4-10 in a single table. # Data name File Simple search and download 14 CEL file attachments Open-tgg... SEF URLs by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - Open TG-GATEs | LSDB Archive ...

  17. The Personal Sequence Database: a suite of tools to create and maintain web-accessible sequence databases

    Directory of Open Access Journals (Sweden)

    Sullivan Christopher M

    2007-12-01

    Full Text Available Abstract Background Large molecular sequence databases are fundamental resources for modern bioscientists. Whether for project-specific purposes or sharing data with colleagues, it is often advantageous to maintain smaller sequence databases. However, this is usually not an easy task for the average bench scientist. Results We present the Personal Sequence Database (PSD, a suite of tools to create and maintain small- to medium-sized web-accessible sequence databases. All interactions with PSD tools occur via the internet with a web browser. Users may define sequence groups within their database that can be maintained privately or published to the web for public use. A sequence group can be downloaded, browsed, searched by keyword or searched for sequence similarities using BLAST. Publishing a sequence group extends these capabilities to colleagues and collaborators. In addition to being able to manage their own sequence databases, users can enroll sequences in BLASTAgent, a BLAST hit tracking system, to monitor NCBI databases for new entries displaying a specified level of nucleotide or amino acid similarity. Conclusion The PSD offers a valuable set of resources unavailable elsewhere. In addition to managing sequence data and BLAST search results, it facilitates data sharing with colleagues, collaborators and public users. The PSD is hosted by the authors and is available at http://bioinfo.cgrb.oregonstate.edu/psd/.

  18. CDAPubMed: a browser extension to retrieve EHR-based biomedical literature

    Directory of Open Access Journals (Sweden)

    Perez-Rey David

    2012-04-01

    Full Text Available Abstract Background Over the last few decades, the ever-increasing output of scientific publications has led to new challenges to keep up to date with the literature. In the biomedical area, this growth has introduced new requirements for professionals, e.g., physicians, who have to locate the exact papers that they need for their clinical and research work amongst a huge number of publications. Against this backdrop, novel information retrieval methods are even more necessary. While web search engines are widespread in many areas, facilitating access to all kinds of information, additional tools are required to automatically link information retrieved from these engines to specific biomedical applications. In the case of clinical environments, this also means considering aspects such as patient data security and confidentiality or structured contents, e.g., electronic health records (EHRs. In this scenario, we have developed a new tool to facilitate query building to retrieve scientific literature related to EHRs. Results We have developed CDAPubMed, an open-source web browser extension to integrate EHR features in biomedical literature retrieval approaches. Clinical users can use CDAPubMed to: (i load patient clinical documents, i.e., EHRs based on the Health Level 7-Clinical Document Architecture Standard (HL7-CDA, (ii identify relevant terms for scientific literature search in these documents, i.e., Medical Subject Headings (MeSH, automatically driven by the CDAPubMed configuration, which advanced users can optimize to adapt to each specific situation, and (iii generate and launch literature search queries to a major search engine, i.e., PubMed, to retrieve citations related to the EHR under examination. Conclusions CDAPubMed is a platform-independent tool designed to facilitate literature searching using keywords contained in specific EHRs. CDAPubMed is visually integrated, as an extension of a widespread web browser, within the standard

  19. SPdb – a signal peptide database

    Directory of Open Access Journals (Sweden)

    Tan Tin

    2005-10-01

    Full Text Available Abstract Background The signal peptide plays an important role in protein targeting and protein translocation in both prokaryotic and eukaryotic cells. This transient, short peptide sequence functions like a postal address on an envelope by targeting proteins for secretion or for transfer to specific organelles for further processing. Understanding how signal peptides function is crucial in predicting where proteins are translocated. To support this understanding, we present SPdb signal peptide database http://proline.bic.nus.edu.sg/spdb, a repository of experimentally determined and computationally predicted signal peptides. Results SPdb integrates information from two sources (a Swiss-Prot protein sequence database which is now part of UniProt and (b EMBL nucleotide sequence database. The database update is semi-automated with human checking and verification of the data to ensure the correctness of the data stored. The latest release SPdb release 3.2 contains 18,146 entries of which 2,584 entries are experimentally verified signal sequences; the remaining 15,562 entries are either signal sequences that fail to meet our filtering criteria or entries that contain unverified signal sequences. Conclusion SPdb is a manually curated database constructed to support the understanding and analysis of signal peptides. SPdb tracks the major updates of the two underlying primary databases thereby ensuring that its information remains up-to-date.

  20. Database development and management

    CERN Document Server

    Chao, Lee

    2006-01-01

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

  1. License - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available is database, under the license, as long as you comply with the following conditions: You must attribute this...PGDBj - Ortholog DB License License to Use This Database Last updated : 2014/04/04 You may use this database...se terms regarding the use of this database and the requirements you must follow ...in using this database. The license for this database is specified in the Creative Commons Attribution-Share Alike 2.1 Japan . If you...re . With regard to this database, you are licensed to: freely access part or whole of this database, and ac

  2. ECRbase: Database of Evolutionary Conserved Regions, Promoters, and Transcription Factor Binding Sites in Vertebrate Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Loots, G; Ovcharenko, I

    2006-08-08

    Evolutionary conservation of DNA sequences provides a tool for the identification of functional elements in genomes. We have created a database of evolutionary conserved regions (ECRs) in vertebrate genomes entitled ECRbase that is constructed from a collection of pairwise vertebrate genome alignments produced by the ECR Browser database. ECRbase features a database of syntenic blocks that recapitulate the evolution of rearrangements in vertebrates and a collection of promoters in all vertebrate genomes presented in the database. The database also contains a collection of annotated transcription factor binding sites (TFBS) in all ECRs and promoter elements. ECRbase currently includes human, rhesus macaque, dog, opossum, rat, mouse, chicken, frog, zebrafish, and two pufferfish genomes. It is freely accessible at http://ECRbase.dcode.org.

  3. The Multimedia Information Inquiry System Based on Browser/Server Systematic Structure%基于Browser/Server体系结构的多媒体信息查询系统

    Institute of Scientific and Technical Information of China (English)

    王晓国; 万金友; 张维东

    1998-01-01

    阐述了在Internet时代必须开发Internet上的多媒体信息查询系统的必要性,并详细地讨论了以Windows NT为Web Server、基于Browser/Server体系结构的Internet多媒体信息查询系统的一种实现方法.

  4. 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

  5. Ancillary Resistor leads to Sparse Glitches: an Extra Approach to Avert Hacker using Syndicate Browser Design

    Directory of Open Access Journals (Sweden)

    Devaki Pendlimarri

    2012-01-01

    Full Text Available After the invention of internet most of the people all over the world have become a fan of it because of its vast exploitation for information exchange, e-mail, e-commerce etc. for their easy leading of life. On the other side, may be equally or less/more, many people are also using it for the purpose of hacking the information which is being communicated. Because, the data/information that is being communicated through the internet is via an unsecured networks. This gives breaches to the hacker who is known as the man-in-the-middle to hack the data/information. In this paper, we describe some novel methodologies to prevent the hacker in hacking the data/information. The web browser design is being  carried out in our R&D lab and we have found that the novel methodology has given solution to prevent the man-in-the-middle from several attacks.

  6. Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser

    LENUS (Irish Health Repository)

    Fitzpatrick, David A

    2010-05-10

    Abstract Background Candida species are the most common cause of opportunistic fungal infection worldwide. Recent sequencing efforts have provided a wealth of Candida genomic data. We have developed the Candida Gene Order Browser (CGOB), an online tool that aids comparative syntenic analyses of Candida species. CGOB incorporates all available Candida clade genome sequences including two Candida albicans isolates (SC5314 and WO-1) and 8 closely related species (Candida dubliniensis, Candida tropicalis, Candida parapsilosis, Lodderomyces elongisporus, Debaryomyces hansenii, Pichia stipitis, Candida guilliermondii and Candida lusitaniae). Saccharomyces cerevisiae is also included as a reference genome. Results CGOB assignments of homology were manually curated based on sequence similarity and synteny. In total CGOB includes 65617 genes arranged into 13625 homology columns. We have also generated improved Candida gene sets by merging\\/removing partial genes in each genome. Interrogation of CGOB revealed that the majority of tandemly duplicated genes are under strong purifying selection in all Candida species. We identified clusters of adjacent genes involved in the same metabolic pathways (such as catabolism of biotin, galactose and N-acetyl glucosamine) and we showed that some clusters are species or lineage-specific. We also identified one example of intron gain in C. albicans. Conclusions Our analysis provides an important resource that is now available for the Candida community. CGOB is available at http:\\/\\/cgob.ucd.ie.

  7. Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser

    Directory of Open Access Journals (Sweden)

    Byrne Kevin P

    2010-05-01

    Full Text Available Abstract Background Candida species are the most common cause of opportunistic fungal infection worldwide. Recent sequencing efforts have provided a wealth of Candida genomic data. We have developed the Candida Gene Order Browser (CGOB, an online tool that aids comparative syntenic analyses of Candida species. CGOB incorporates all available Candida clade genome sequences including two Candida albicans isolates (SC5314 and WO-1 and 8 closely related species (Candida dubliniensis, Candida tropicalis, Candida parapsilosis, Lodderomyces elongisporus, Debaryomyces hansenii, Pichia stipitis, Candida guilliermondii and Candida lusitaniae. Saccharomyces cerevisiae is also included as a reference genome. Results CGOB assignments of homology were manually curated based on sequence similarity and synteny. In total CGOB includes 65617 genes arranged into 13625 homology columns. We have also generated improved Candida gene sets by merging/removing partial genes in each genome. Interrogation of CGOB revealed that the majority of tandemly duplicated genes are under strong purifying selection in all Candida species. We identified clusters of adjacent genes involved in the same metabolic pathways (such as catabolism of biotin, galactose and N-acetyl glucosamine and we showed that some clusters are species or lineage-specific. We also identified one example of intron gain in C. albicans. Conclusions Our analysis provides an important resource that is now available for the Candida community. CGOB is available at http://cgob.ucd.ie.

  8. Discovering functional modules across diverse maize transcriptomes using COB, the Co-expression Browser.

    Science.gov (United States)

    Schaefer, Robert J; Briskine, Roman; Springer, Nathan M; Myers, Chad L

    2014-01-01

    Tools that provide improved ability to relate genotype to phenotype have the potential to accelerate breeding for desired traits and to improve our understanding of the molecular variants that underlie phenotypes. The availability of large-scale gene expression profiles in maize provides an opportunity to advance our understanding of complex traits in this agronomically important species. We built co-expression networks based on genome-wide expression data from a variety of maize accessions as well as an atlas of different tissues and developmental stages. We demonstrate that these networks reveal clusters of genes that are enriched for known biological function and contain extensive structure which has yet to be characterized. Furthermore, we found that co-expression networks derived from developmental or tissue atlases as compared to expression variation across diverse accessions capture unique functions. To provide convenient access to these networks, we developed a public, web-based Co-expression Browser (COB), which enables interactive queries of the genome-wide networks. We illustrate the utility of this system through two specific use cases: one in which gene-centric queries are used to provide functional context for previously characterized metabolic pathways, and a second where lists of genes produced by mapping studies are further resolved and validated using co-expression networks.

  9. Discovering functional modules across diverse maize transcriptomes using COB, the Co-expression Browser.

    Directory of Open Access Journals (Sweden)

    Robert J Schaefer

    Full Text Available Tools that provide improved ability to relate genotype to phenotype have the potential to accelerate breeding for desired traits and to improve our understanding of the molecular variants that underlie phenotypes. The availability of large-scale gene expression profiles in maize provides an opportunity to advance our understanding of complex traits in this agronomically important species. We built co-expression networks based on genome-wide expression data from a variety of maize accessions as well as an atlas of different tissues and developmental stages. We demonstrate that these networks reveal clusters of genes that are enriched for known biological function and contain extensive structure which has yet to be characterized. Furthermore, we found that co-expression networks derived from developmental or tissue atlases as compared to expression variation across diverse accessions capture unique functions. To provide convenient access to these networks, we developed a public, web-based Co-expression Browser (COB, which enables interactive queries of the genome-wide networks. We illustrate the utility of this system through two specific use cases: one in which gene-centric queries are used to provide functional context for previously characterized metabolic pathways, and a second where lists of genes produced by mapping studies are further resolved and validated using co-expression networks.

  10. Feeding rates of a mammalian browser confirm the predictions of a 'foodscape' model of its habitat.

    Science.gov (United States)

    Marsh, Karen J; Moore, Ben D; Wallis, Ian R; Foley, William J

    2014-03-01

    Adequate nutrition is a fundamental requirement for the maintenance and growth of populations, but complex interactions between nutrients and plant toxins make it difficult to link variation in plant quality to the ecology of wild herbivores. We asked whether a 'foodscape' model of habitat that uses near-infrared spectroscopy to describe the palatability of individual trees in the landscape, predicted the foraging decisions of a mammalian browser, the koala (Phascolarctos cinereus). Specifically, we considered four behavioural decision points at which nutritional quality may influence an animal's decision. These were: which tree to enter, whether to feed from that tree, when to stop eating, and how long to remain in that tree. There were trends for koalas to feed in eucalypt trees that were more palatable than unvisited neighbouring conspecific trees, and than trees that they visited but did not eat. Koalas ate longer meals in more palatable trees, and stayed longer and spent more time feeding per visit to these trees. Using more traditional chemical analyses, we identified that an interaction between the concentrations of formylated phloroglucinol compounds (a group of plant secondary metabolites) and available N (an integrated measure of tannins, digestibility and N) influenced feeding. The study shows that foodscape models that combine spatial information with integrated measures of food quality are a powerful tool to predict the feeding behaviour of herbivores in a landscape.

  11. Elephant impact on shoot distribution on trees and on rebrowsing by smaller browsers

    Science.gov (United States)

    Makhabu, Shimane W.; Skarpe, Christina; Hytteborn, Håkan

    2006-09-01

    In order to determine the effects of a megaherbivore, the African elephant ( Loxodonta africana) on browse available for mesoherbivores, we assessed the vertical distribution of shoots (< 6 mm in diameter) on trees with different accumulated elephant impact. We also determined the foraging responses by a mixed feeder, impala ( Aepyceros melampus) and a browser, greater kudu ( Tragelaphus strepsiceros) which are mesoherbivores. The foraging responses by impala and kudu were in terms of preferences of trees with different accumulated elephant impact levels and whether animals browsed in different height sections in proportion to availability of shoots. We counted shoots in each 20 cm height section up to 2.6 m on trees in 25 m by 25 m plots and on trees observed to be browsed by impala and kudu. In most tree species, individuals with high accumulated elephant impact were shorter and had more shoots at low levels than tree individuals with either low or no accumulated elephant impact. Impala and kudu preferred to browse tree individuals with accumulated elephant impact over those without such impact. Impala and kudu browsed more than expected at height sections with many shoots and less than expected at height sections with fewer shoots indicating a non-linear overmatching foraging response. We suggest that increased shoot abundance at low levels in the canopy might explain part of the observed preferences. Elephants, therefore, seem to facilitate browsing by mesoherbivores by generating 'browsing lawns'. Such benefits need to be considered when making decisions on how to manage populations of megaherbivores like elephant.

  12. Croatian Cadastre Database Modelling

    Directory of Open Access Journals (Sweden)

    Zvonko Biljecki

    2013-04-01

    Full Text Available The Cadastral Data Model has been developed as a part of a larger programme to improve products and production environment of the Croatian Cadastral Service of the State Geodetic Administration (SGA. The goal of the project was to create a cadastral data model conforming to relevant standards and specifications in the field of geoinformation (GI adapted by international organisations for standardisation under the competence of GI (ISO TC211 and OpenGIS and it implementations.The main guidelines during the project have been object-oriented conceptual modelling of the updated users' requests and a "new" cadastral data model designed by SGA - Faculty of Geodesy - Geofoto LLC project team. The UML of the conceptual model is given per all feature categories and is described only at class level. The next step was the UML technical model, which was developed from the UML conceptual model. The technical model integrates different UML schemas in one united schema.XML (eXtensible Markup Language was applied for XML description of UML models, and then the XML schema was transferred into GML (Geography Markup Language application schema. With this procedure we have completely described the behaviour of each cadastral feature and rules for the transfer and storage of cadastral features into the database.

  13. LHC Databases on the Grid: Achievements and Open Issues

    CERN Document Server

    Vaniachine, A V

    2010-01-01

    To extract physics results from the recorded data, the LHC experiments are using Grid computing infrastructure. The event data processing on the Grid requires scalable access to non-event data (detector conditions, calibrations, etc.) stored in relational databases. The database-resident data are critical for the event data reconstruction processing steps and often required for physics analysis. This paper reviews LHC experience with database technologies for the Grid computing. List of topics includes: database integration with Grid computing models of the LHC experiments; choice of database technologies; examples of database interfaces; distributed database applications (data complexity, update frequency, data volumes and access patterns); scalability of database access in the Grid computing environment of the LHC experiments. The review describes areas in which substantial progress was made and remaining open issues.

  14. The Physiology Constant Database of Teen-Agers in Beijing

    Directory of Open Access Journals (Sweden)

    Wei Wei-Qi

    2004-01-01

    Full Text Available Physiology constants of adolescents are important to understand growing living systems and are a useful reference in clinical and epidemiological research. Until recently, physiology constants were not available in China and therefore most physiologists, physicians, and nutritionists had to use data from abroad for reference. However, the very difference between the Eastern and Western races casts doubt on the usefulness of overseas data. We have therefore created a database system to provide a repository for the storage of physiology constants of teen-agers in Beijing. The several thousands of pieces of data are now divided into hematological biochemistry, lung function, and cardiac function with all data manually checked before being transferred into the database. The database was accomplished through the development of a web interface, scripts, and a relational database. The physiology data were integrated into the relational database system to provide flexible facilities by using combinations of various terms and parameters. A web browser interface was designed for the users to facilitate their searching. The database is available on the web. The statistical table, scatter diagram, and histogram of the data are available for both anonym and user according to queries, while only the user can achieve detail, including download data and advanced search.

  15. AIDSinfo Drug Database

    Science.gov (United States)

    ... U V W X Y Z All Drugs Drug News Thursday, February 2, 2017 Sustiva Drug Label Updated ... Drug Label Updated Tuesday, January 31, 2017 Stribild Drug Label Updated More News Mobile Apps iPhone/iPad App Android App Back ...

  16. Improvements for the Western North Atlantic, Caribbean and Gulf of Mexico ADCIRC Tidal Database (EC2015

    Directory of Open Access Journals (Sweden)

    Christine Szpilka

    2016-11-01

    Full Text Available This research details the development and validation of an updated constituent tidal database for the Western North Atlantic, Caribbean and Gulf of Mexico (WNAT region, referred to as the EC2015 database. Regional databases, such as EC2015, provide much higher resolution than global databases allowing users to more accurately define the tidal forcing on smaller sub-region domains. The database last underwent major updates in 2001 and was developed using the two-dimensional, depth-integrated form of the coastal hydrodynamic model, ADvanced CIRCulation (ADCIRC, which solves the shallow-water equations in the generalized wave continuity equation form. Six main areas of improvement are examined: (1 placement of the open ocean boundary; (2 higher coastal resolution using Vertical Datum (VDatum models; (3 updated bathymetry from global databases; (4 updated boundary forcing compared using two global tidal databases; (5 updated bottom friction formulations; and (6 improved model physics by incorporating the advective terms in ADCIRC. The skill of the improved database is compared to that of its predecessor and is calculated using harmonic data from the National Oceanic and Atmospheric Administration Center for Operational Oceanographic Products and Services (NOAA CO-OPS stations and historic International Hydrographic Organization (IHO data. Overall, the EC2015 database significantly reduces errors realized in the EC2001 database and improves the quality of coastal tidal constituents available for smaller sub-regional models in the Western North Atlantic, Caribbean and Gulf of Mexico (WNAT region.

  17. Databases and their application

    NARCIS (Netherlands)

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

    2013-01-01

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

  18. A Foundation for Vacuuming Temporal Databases

    DEFF Research Database (Denmark)

    Skyt, Janne; Jensen, Christian Søndergaard; Mark, L.

    2003-01-01

    A wide range of real-world database applications, including financial and medical applications, are faced with accountability and traceability requirements. These requirements lead to the replacement of the usual update-in-place policy by an append-only policy that retain all previous states...... in the database. This policy result in so-called transaction-time databases which are ever-growing. A variety of physical storage structures and indexing techniques as well as query languages have been proposed for transaction-time databases, but the support for physical removal of data, termed vacuuming, has...... only received little attention. Such vacuuming is called for by, e.g., the laws of many countries and the policies of many businesses. Although necessary, with vacuuming, the database’s perfect recollection of the past may be compromised via, e.g., selective removal of records pertaining to past states...

  19. Sandia computerized shock compression bibliographical database

    Energy Technology Data Exchange (ETDEWEB)

    Wilbeck, J.S.; Anderson, C.E.; Hokanson, J.C.; Asay, J.R.; Grady, D.E.; Graham, R.A.; Kipp, M.E.

    1985-01-01

    A searchable and updateable bibliographical database is being developed which will be designed, controlled, and evaluated by working technical experts in the field of shock-compression science. It will emphasize shock-compression properties in the stress region of a few tens of GPa and provide a broad and complete base of bibliographical information on the shock-compression behavior of materials. Through the operation of technical advisors, the database provides authoritative blbliographical and keyword data for use by both the inexperienced and expert user. In its current form, it consists of: (1) a library of journal articles, reports, books, and symposia papers in the areas of shock physics and shock mechanics; and (2) a computerized database system containing complete bibliographical information, exhaustive keyword descriptions, and author abstracts for each of the documents in the database library.

  20. A Connection Model between the Positioning Mechanism and Ultrasonic Measurement System via a Web Browser to Assess Acoustic Target Strength

    Science.gov (United States)

    Ishii, Ken; Imaizumi, Tomohito; Abe, Koki; Takao, Yoshimi; Tamura, Shuko

    This paper details a network-controlled measurement system for use in fisheries engineering. The target strength (TS) of fish is important in order to convert acoustic integration values obtained during acoustic surveys into estimates of fish abundance. The target strength pattern is measured with the combination of the rotation system for the aspect of the sample and the echo data acquisition system using the underwater supersonic wave. The user interface of the network architecture is designed for collaborative use with researchers in other organizations. The flexible network architecture is based on the web direct-access model for the rotation mechanism. The user interface is available for monitoring and controlling via a web browser that is installed in any terminal PC (personal computer). Previously the combination of two applications was performed not by a web browser but by the exclusive interface program. So a connection model is proposed between two applications by indirect communication via the DCOM (Distributed Component Object Model) server and added in the web direct-access model. A prompt report system in the TS measurement system and a positioning and measurement system using an electric flatcar via a web browser are developed. By a secure network architecture, DCOM communications via both Intranet and LAN are successfully certificated.