WorldWideScience

Sample records for browser database update

  1. The UCSC Genome Browser database: 2016 update

    OpenAIRE

    Speir, Matthew L; Zweig, Ann S.; Rosenbloom, Kate R.; Raney, Brian J.; Paten, Benedict; Nejad, Parisa; Rowe, Laurence D.; Learned, Katrina; Karolchik, Donna; Hinrichs, Angie S.; Heitner, Steve; Harte, Rachel A.; Haeussler, Maximilian; Guruvadoo, Luvina; Fujita, Pauline A.

    2015-01-01

    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 vari...

  2. 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. PMID:26590259

  3. The UCSC Genome Browser Database: update 2006

    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, m......RNA and expressed sequence tag evidence, comparative genomics, regulation, expression and variation data. The database is optimized to support fast interactive performance with web tools that provide powerful visualization and querying capabilities for mining the data. The Genome Browser displays a wide variety...... of annotations at all scales from single nucleotide level up to a full chromosome. The Table Browser provides direct access to the database tables and sequence data, enabling complex queries on genome-wide datasets. The Proteome Browser graphically displays protein properties. The Gene Sorter allows filtering...

  4. The UCSC Genome Browser database: 2015 update

    OpenAIRE

    Rosenbloom, Kate R.; Armstrong, Joel; Barber, Galt P.; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Dreszer, Timothy R.; Fujita, Pauline A.; Guruvadoo, Luvina; Haeussler, Maximilian; Harte, Rachel A.; Heitner, Steve; Hickey, Glenn; Hinrichs, Angie S.; Hubley, Robert

    2014-01-01

    Launched in 2001 to showcase the draft human genome assembly, the UCSC Genome Browser database (http://genome.ucsc.edu) and associated tools continue to grow, providing a comprehensive resource of genome assemblies and annotations to scientists and students worldwide. Highlights of the past year include the release of a browser for the first new human genome reference assembly in 4 years in December 2013 (GRCh38, UCSC hg38), a watershed comparative genomics annotation (100-species multiple al...

  5. The UCSC Genome Browser database: 2015 update.

    Science.gov (United States)

    Rosenbloom, Kate R; Armstrong, Joel; Barber, Galt P; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Dreszer, Timothy R; Fujita, Pauline A; Guruvadoo, Luvina; Haeussler, Maximilian; Harte, Rachel A; Heitner, Steve; Hickey, Glenn; Hinrichs, Angie S; Hubley, Robert; Karolchik, Donna; Learned, Katrina; Lee, Brian T; Li, Chin H; Miga, Karen H; Nguyen, Ngan; Paten, Benedict; Raney, Brian J; Smit, Arian F A; Speir, Matthew L; Zweig, Ann S; Haussler, David; Kuhn, Robert M; Kent, W James

    2015-01-01

    Launched in 2001 to showcase the draft human genome assembly, the UCSC Genome Browser database (http://genome.ucsc.edu) and associated tools continue to grow, providing a comprehensive resource of genome assemblies and annotations to scientists and students worldwide. Highlights of the past year include the release of a browser for the first new human genome reference assembly in 4 years in December 2013 (GRCh38, UCSC hg38), a watershed comparative genomics annotation (100-species multiple alignment and conservation) and a novel distribution mechanism for the browser (GBiB: Genome Browser in a Box). We created browsers for new species (Chinese hamster, elephant shark, minke whale), 'mined the web' for DNA sequences and expanded the browser display with stacked color graphs and region highlighting. As our user community increasingly adopts the UCSC track hub and assembly hub representations for sharing large-scale genomic annotation data sets and genome sequencing projects, our menu of public data hubs has tripled. PMID:25428374

  6. 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....

  7. 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...... to a full chromosome and includes assembly data, genes and gene predictions, mRNA and EST alignments, and comparative genomics, regulation, expression and variation data. The database is optimized for fast interactive performance with web tools that provide powerful visualization and querying capabilities......; an expanded SNP annotation track; and many new display options. The Genome Browser, other tools, downloadable data files and links to documentation and other information can be found at http://genome.ucsc.edu/....

  8. 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 vertebrate...... and 21 invertebrate species as of September 2007. For each assembly, the GBD contains a collection of annotation data aligned to the genomic sequence. Highlights of this year's additions include a 28-species human-based vertebrate conservation annotation, an enhanced UCSC Genes set, and more human...... variation, MGC, and ENCODE data. The database is optimized for fast interactive performance with a set of web-based tools that may be used to view, manipulate, filter and download the annotation data. New toolset features include the Genome Graphs tool for displaying genome-wide data sets, session saving...

  9. A multi-fingerprint browser for the ZINC database

    Science.gov (United States)

    Awale, Mahendra; Reymond, Jean-Louis

    2014-01-01

    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. PMID:24782520

  10. [A Terahertz Spectral Database Based on Browser/Server Technique].

    Science.gov (United States)

    Zhang, Zhuo-yong; Song, Yue

    2015-09-01

    With the solution of key scientific and technical problems and development of instrumentation, the application of terahertz technology in various fields has been paid more and more attention. Owing to the unique characteristic advantages, terahertz technology has been showing a broad future in the fields of fast, non-damaging detections, as well as many other fields. Terahertz technology combined with other complementary methods can be used to cope with many difficult practical problems which could not be solved before. One of the critical points for further development of practical terahertz detection methods depends on a good and reliable terahertz spectral database. We developed a BS (browser/server) -based terahertz spectral database recently. We designed the main structure and main functions to fulfill practical requirements. The terahertz spectral database now includes more than 240 items, and the spectral information was collected based on three sources: (1) collection and citation from some other abroad terahertz spectral databases; (2) collected from published literatures; and (3) spectral data measured in our laboratory. The present paper introduced the basic structure and fundament functions of the terahertz spectral database developed in our laboratory. One of the key functions of this THz database is calculation of optical parameters. Some optical parameters including absorption coefficient, refractive index, etc. can be calculated based on the input THz time domain spectra. The other main functions and searching methods of the browser/server-based terahertz spectral database have been discussed. The database search system can provide users convenient functions including user registration, inquiry, displaying spectral figures and molecular structures, spectral matching, etc. The THz database system provides an on-line searching function for registered users. Registered users can compare the input THz spectrum with the spectra of database, according to

  11. Simple Browser Construction Toolkit

    OpenAIRE

    宮本,修

    2010-01-01

    A special browser is a specialized browser designed only for a specific website, providing a very comfortable user interface for that website. However, it is usually necessary to update the special browser when there is a design change to the website. Therefore, a special browser should be easy to update. I propose such a browser here. The proposed browser also has robustness, meaning that it does not need to be updatedfor a small change to the website. abstract environment.

  12. 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.

  13. 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

  14. 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 Update Histo...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 ... ...ry of This Database Date Update contents 2014/05/09 KEGG MEDICUS English archive si

  15. 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 Op...tio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Update History

  16. Human protein reference database--2006 update.

    Science.gov (United States)

    Mishra, Gopa R; Suresh, M; Kumaran, K; Kannabiran, N; Suresh, Shubha; Bala, P; Shivakumar, K; Anuradha, N; Reddy, Raghunath; Raghavan, T Madhan; Menon, Shalini; Hanumanthu, G; Gupta, Malvika; Upendran, Sapna; Gupta, Shweta; Mahesh, M; Jacob, Bincy; Mathew, Pinky; Chatterjee, Pritam; Arun, K S; Sharma, Salil; Chandrika, K N; Deshpande, Nandan; Palvankar, Kshitish; Raghavnath, R; Krishnakanth, R; Karathia, Hiren; Rekha, B; Nayak, Rashmi; Vishnupriya, G; Kumar, H G Mohan; Nagini, M; Kumar, G S Sameer; Jose, Rojan; Deepthi, P; Mohan, S Sujatha; Gandhi, T K B; Harsha, H C; Deshpande, Krishna S; Sarker, Malabika; Prasad, T S Keshava; Pandey, Akhilesh

    2006-01-01

    Human Protein Reference Database (HPRD) (http://www.hprd.org) was developed to serve as a comprehensive collection of protein features, post-translational modifications (PTMs) and protein-protein interactions. Since the original report, this database has increased to >20 000 proteins entries and has become the largest database for literature-derived protein-protein interactions (>30 000) and PTMs (>8000) for human proteins. We have also introduced several new features in HPRD including: (i) protein isoforms, (ii) enhanced search options, (iii) linking of pathway annotations and (iv) integration of a novel browser, GenProt Viewer (http://www.genprot.org), developed by us that allows integration of genomic and proteomic information. With the continued support and active participation by the biomedical community, we expect HPRD to become a unique source of curated information for the human proteome and spur biomedical discoveries based on integration of genomic, transcriptomic and proteomic data. PMID:16381900

  17. 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 Update History... Download License Update History of This Database Site Policy | Contact Us Update History of This Database - GETDB | LSDB Archive ...

  18. 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 Update Hist...ory 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 Update History... of This Database Site Policy | Contact Us Update History of This Database - Gclust Server | LSDB Archive ...

  19. 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... Update History of This Database Date Update contents 2014/05/07 The contact informatio...n is corrected. The features and manner of utilization of the database are corrected. 2014/02/04 Trypanosomes Database... English archive site is opened. 2011/04/04 Trypanosomes Database ( htt...p://www.tanpaku.org/tdb/ ) is opened. Joomla SEF URLs by Artio About This Database Database Description Down

  20. Fast reactor database. 2006 update

    International Nuclear Information System (INIS)

    plants. The recurring themes are the selection and summary of the data associated with the choice of coolant, fuel and structural materials, reduction of the steel weight, simplification of the plant design/layout, other important fast reactor design issues, and how to solve these problems. In the field of fast reactor design and operational data, the last reference document published by the IAEA was the 1996 Fast Reactor Database (IAEA-TECDOC-866). Since its publication, quite a lot has happened: the construction of two new reactors has been launched, and conceptual/design studies were initiated for various fast reactors, e.g. the Japanese JSFR-1500 and the Russian BN-1800 (both cooled by sodium), as well as for a wholly new line of LMFR concepts - modular reactors cooled by sodium and by lead-bismuth alloy, and prototype and demonstration commercial size fast reactors cooled by lead. The data were produced by the IAEA's Technical Working Group on Fast Reactors (TWG-FR). For many of the TWG-FR Member States there is a significant history of fast reactor development, often extending over a period of 40+ years. The new and updated information on LMFR, which are in operation, under construction or development, has been prepared with contributions from China, India, Japan, Republic of Korea and the Russian Federation. The information contained in IAEA-TECDOC-866, produced by France, Germany, Italy, the UK and the USA, was included in the present report with some modification taking into account last events

  1. Update History of This Database - RGP gmap | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available RGP gmap Update History of This Database Date Update contents 2014/10/31 RGP gmap English archive site is op...enetics/ricegmap.html) is opened. Joomla SEF URLs by Artio About This Database Database Description Download... License Update History of This Database Site Policy | Contact Us Update History of This Database - RGP gmap | LSDB Archive ...

  2. Update History of This Database - KOME | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available 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 ...

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

    Lifescience Database Archive (English)

    Full Text Available of This Database Site Policy | Contact Us Update History of This Database - Taxonomy Icon | LSDB Archive ... ...by Artio About This Database Database Description Download License Update History

  4. Update History of This Database - Plabrain DB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available y of This Database Site Policy | Contact Us Update History of This Database - Plabrain DB | LSDB Archive ... ... is opened. Joomla SEF URLs by Artio About This Database Database Description Download License Update Histor

  5. Faculty expertise database updated, improved

    OpenAIRE

    Trulove, Susan

    2007-01-01

    To help business, industry, government, and media representatives find Virginia Tech faculty members and graduate students with specific expertise, the Office of the Vice President for Research has expanded the Virginia Tech Expertise Database and made it easier to use.

  6. 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 Update History...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 ...

  7. 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 Update History...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 ...

  8. 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 Update History...iew/acest/ ) is released. Joomla SEF URLs by Artio About This Database Database Description Download License Update History... of This Database Site Policy | Contact Us Update History of This Database - AcEST | LSDB Archive ...

  9. Update History of This Database - 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 DMPD Update History...Download License Update History of This Database Site Policy | Contact Us Update History of This Database - DMPD | LSDB Archive ... ...) is released. Joomla SEF URLs by Artio About This Database Database Description

  10. 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 Update History...tory of This Database Site Policy | Contact Us Update History of This Database - DGBY | LSDB Archive ... ...yakudachi/yeast/index.html ) is opened. Joomla SEF URLs by Artio About This Database Database Description Download License Update His

  11. Update History of This Database - 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 RPSD Update History...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 ...

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

  13. 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 Update History... 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 ...

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

  15. 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 Update History...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 ...

  16. Update History of This Database - 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 Dicty_cDB Update History...s by Artio About This Database Database Description Download License Update History of This Database Site Po...licy | Contact Us Update History of This Database - Dicty_cDB | LSDB Archive ...

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

    Directory of Open Access Journals (Sweden)

    Parrish Jodi R

    2006-04-01

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

  18. Updating road databases using change detection techniques

    NARCIS (Netherlands)

    Platschorre, Y.; Dekker, R.J.

    1999-01-01

    The Traffic and Transport Advisory Service (AW) at RWS supplies information on traffic and infrastructure on land and water. The information which is stored in the National Road Database (NWB) has therefore to be updated regularly. For this purpose remote sensing images are very useful due to their

  19. 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 Update 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 Update History... of This Database Site Policy | Contact Us Update History of This Database - PGDBj - Ortholog DB | LSDB Archive ...

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

  1. 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 Update Hist...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 ... ...ory of This Database Date Update contents 2012/07/04 A part of the hematology and b

  2. ASDSO updates bibliography, creates support database

    International Nuclear Information System (INIS)

    The Association of State Dam Safety Officials has updated its Bibliography of Dam Safety Practices, originally published in 1990 with assistance from the US Committee on Large Dams. The new document lists publications addressing dam safety issues and includes 20 subject headings. The Federal Emergency Management Agency underwrote the update, which includes information about journal articles on dam safety, conference presentations, and new books and manuals. The publication also contains information about obtaining copies of the documents. The bibliography features a new section on use of geosynthetics in dam safety, compiled by Greg Hammer, of ASDSO's Technical Committee. Dam break analysis, emergency action planning, instrumentation, inspections, overtopping of dams, rehabilitation of dams, risk analysis, and seismic behavior are also included. In conjunction with the release of the updated bibliography, ASDSO is creating a computer database for its members that contains information from the bibliography. ASDSO also is in the process of adding information to the database about current research in dam safety. When the database becomes available later this year, members will be able to search for information on research in a specific subject area. Users also will be able to search for research groups, individuals, and universities to obtain an overview of who is conducting research in dam safety. Additionally, the database will allow the user to search for subject matter experts when looking for conference speakers and writers with specific specialties

  3. The 1999 SWISS-2DPAGE database update.

    Science.gov (United States)

    Hoogland, C; Sanchez, J C; Tonella, L; Binz, P A; Bairoch, A; Hochstrasser, D F; Appel, R D

    2000-01-01

    SWISS-2DPAGE (http://www.expasy.ch/ch2d/ ) is an annotated two-dimensional polyacrylamide gel electro-phoresis (2-DE) database established in 1993. The current release contains 24 reference maps from human and mouse biological samples, as well as from Saccharomyces cerevisiae, Escherichia coli and Dictyostelium discoideum origin. These reference maps have now 2824 identified spots, corresponding to 614 separate protein entries in the database, in addition to virtual entries for each SWISS-PROT sequence or any user-entered amino acids sequence. Last year improvements in the SWISS-2DPAGE database are as follows: three new maps have been created and several others have been updated; cross-references to newly built federated 2-DE databases have been added; new functions to access the data have been provided through the ExPASy proteomics server. PMID:10592248

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

  5. 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 Update History...base Database Description Download License Update History of This Database Site P...olicy | Contact Us Update History of This Database - GenLibi | LSDB Archive ...

  6. 77 FR 71089 - Pilot Loading of Aeronautical Database Updates

    Science.gov (United States)

    2012-11-29

    ...) card, rather than in resident memory. The database update was accomplished by removing the SD card with... FAA issued regulations (61 FR 19498) categorizing pilot-performed updates of navigation databases as... regulations in the NPRM (76 FR 64859, October 19, 2011), by removing the task of updating databases used...

  7. The CPR survey (1948-1997): a gridded database browser of plankton abundance in the North Sea [review article

    Science.gov (United States)

    Vezzulli, L.; Reid, P. C.

    2003-08-01

    The Continuous Plankton Recorder (CPR) survey provides a unique multi-decadal dataset on the abundance of plankton in the North Sea and North Atlantic and is one of only a few monitoring programmes operating at a large spatio-temporal scale. The results of all samples analysed from the survey since 1946 are stored on an Access Database at the Sir Alister Hardy Foundation for Ocean Science (SAHFOS) in Plymouth. The database is large, containing more than two million records (~80 million data points, if zero results are added) for more than 450 taxonomic entities. An open data policy is operated by SAHFOS. However, the data are not on-line and so access by scientists and others wishing to use the results is not interactive. Requests for data are dealt with by the Database Manager. To facilitate access to the data from the North Sea, which is an area of high research interest, a selected set of data for key phytoplankton and zooplankton species has been processed in a form that makes them readily available on CD for research and other applications. A set of MATLAB tools has been developed to provide an interpolated spatio-temporal description of plankton sampled by the CPR in the North Sea, as well as easy and fast access to users in the form of a browser. Using geostatistical techniques, plankton abundance values have been interpolated on a regular grid covering the North Sea. The grid is established on centres of 1° longitude x 0.5° latitude (~32 × 30 nautical miles). Based on a monthly temporal resolution over a fifty-year period (1948-1997), 600 distribution maps have been produced for 54 zooplankton species, and 480 distribution maps for 57 phytoplankton species over the shorter period 1958-1997. The gridded database has been developed in a user-friendly form and incorporates, as a package on a CD, a set of options for visualisation and interpretation, including the facility to plot maps for selected species by month, year, groups of months or years, long

  8. Update History of This Database - Gene Name Thesaurus | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available saurus Update History of This Database Date Update contents 2013/01/17 Added a simple search URL for the ... Gene Name The...[ Credits ] BLAST Search Image Search Home About Archive Update History Contact us Gene Name The...saurus ... data. 2012/01/17 License is updated. 2010/03/29 Gene Name Thesaurus English ...archive site is opened. 2007/3 Gene Name Thesaurus is released in MEXT Integrated...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 ...

  9. Browser Augmentation

    Science.gov (United States)

    Hanson, Vicki L.; Richards, John T.; Swart, Cal

    In this chapter we examine ways of programmatically expanding the functionality of conventional browsers. We consider various mechanisms for creating extensions and add-ons in Internet Explorer and Firefox and briefly review other browsers. We explore some existing browser extensions. The focus is on accessibility extensions, but some prominent other examples of browser extensions are also mentioned. Information for using and creating various types of extensions is presented. Finally, the usefulness of browser extensions compared with other accessibility enablement options for the Web is considered.

  10. 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 Update History...base Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - AT Atlas | LSDB Archive ...

  11. 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 Update History...abase Description Download License Update History of This Database Site Policy | Contact Us Update History of This Database - TP Atlas | LSDB Archive ...

  12. CpGislandEVO: A Database and Genome Browser for Comparative Evolutionary Genomics of CpG Islands

    Directory of Open Access Journals (Sweden)

    Guillermo Barturen

    2013-01-01

    Full Text Available Hypomethylated, CpG-rich DNA segments (CpG islands, CGIs are epigenome markers involved in key biological processes. Aberrant methylation is implicated in the appearance of several disorders as cancer, immunodeficiency, or centromere instability. Furthermore, methylation differences at promoter regions between human and chimpanzee strongly associate with genes involved in neurological/psychological disorders and cancers. Therefore, the evolutionary comparative analyses of CGIs can provide insights on the functional role of these epigenome markers in both health and disease. Given the lack of specific tools, we developed CpGislandEVO. Briefly, we first compile a database of statistically significant CGIs for the best assembled mammalian genome sequences available to date. Second, by means of a coupled browser front-end, we focus on the CGIs overlapping orthologous genes extracted from OrthoDB, thus ensuring the comparison between CGIs located on truly homologous genome segments. This allows comparing the main compositional features between homologous CGIs. Finally, to facilitate nucleotide comparisons, we lifted genome coordinates between assemblies from different species, which enables the analysis of sequence divergence by direct count of nucleotide substitutions and indels occurring between homologous CGIs. The resulting CpGislandEVO database, linking together CGIs and single-cytosine DNA methylation data from several mammalian species, is freely available at our website.

  13. Repbase Update, a database of repetitive elements in eukaryotic genomes

    OpenAIRE

    Bao, Weidong; Kojima, Kenji K.; Kohany, Oleksiy

    2015-01-01

    Repbase Update (RU) is a database of representative repeat sequences in eukaryotic genomes. Since its first development as a database of human repetitive sequences in 1992, RU has been serving as a well-curated reference database fundamental for almost all eukaryotic genome sequence analyses. Here, we introduce recent updates of RU, focusing on technical issues concerning the submission and updating of Repbase entries and will give short examples of using RU data. RU sincerely invites a broad...

  14. The MaizeGDB Genome Browser tutorial: one example of database outreach to biologists via video

    OpenAIRE

    Harper, Lisa C.; Schaeffer, Mary L.; Thistle, Jordan; Gardiner, Jack M.; Andorf, Carson M.; Campbell, Darwin A.; Cannon, Ethalinda K. S.; Braun, Bremen L.; Birkett, Scott M.; Lawrence, Carolyn J.; Sen, Taner Z.

    2011-01-01

    Video tutorials are an effective way for researchers to quickly learn how to use online tools offered by biological databases. At MaizeGDB, we have developed a number of video tutorials that demonstrate how to use various tools and explicitly outline the caveats researchers should know to interpret the information available to them. One such popular video currently available is ‘Using the MaizeGDB Genome Browser’, which describes how the maize genome was sequenced and assembled as well as how...

  15. 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

  16. Update History of This Database - Society Catalog | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available Society Catalog Update 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 inf

  17. 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 BodyParts3D Update Histor...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 - BodyParts3D | LSDB Archive ...

  18. Virgil database for rich links (1999 update).

    OpenAIRE

    Achard, F; Vaysseix, G; Dessen, P; Barillot, E

    1999-01-01

    With so many databases available for research in the Human Genome Project, it is crucial to efficiently relate information from different resources. For that purpose, we maintain Virgil, a database of rich links for data browsing, data analysis and database interconnection. Virgil current version contains more than 40 000 rich links from five major databases: SWISS-PROT, GenBank, PDB, GDB and OMIM. Materials described in this paper are available from http://www.infobiogen.fr/services/virgil/

  19. 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/). PMID:24316579

  20. The Danish (Q)SAR Database Update Project

    DEFF Research Database (Denmark)

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

    2013-01-01

    The Danish (Q)SAR Database is a collection of predictions from quantitative structure–activity relationship ((Q)SAR) models for over 70 environmental and human health-related endpoints (covering biodegradation, metabolism, allergy, irritation, endocrine disruption, teratogenicity, mutagenicity......, 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 will...

  1. 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 will......The Danish (Q)SAR Database is a collection of predictions from quantitative structure–activity relationship ((Q)SAR) models for over 70 environmental and human health-related endpoints (covering biodegradation, metabolism, allergy, irritation, endocrine disruption, teratogenicity, mutagenicity...

  2. MINT, the molecular interaction database: 2012 update

    OpenAIRE

    Licata, L.; Briganti, L.; D. Peluso; Perfetto, L.; Iannuccelli, M.; Galeota, E.; Sacco, F; A. Palma; Nardozza, A. P.; Santonico, E.; Castagnoli, L.; Cesareni, G.

    2011-01-01

    The Molecular INTeraction Database (MINT, http://mint.bio.uniroma2.it/mint/) is a public repository for protein–protein interactions (PPI) reported in peer-reviewed journals. The database grows steadily over the years and at September 2011 contains approximately 235 000 binary interactions captured from over 4750 publications. The web interface allows the users to search, visualize and download interactions data. MINT is one of the members of the International Molecular Exchange consortium (I...

  3. The HUGO Gene Nomenclature Database, 2006 updates

    OpenAIRE

    Eyre, T. A.; Ducluzeau, F.; Sneddon, T. P.; Povey, S; Bruford, E. A.; Lush, M. J.

    2005-01-01

    The HUGO Gene Nomenclature Committee (HGNC) aims to give every human gene a unique and ideally meaningful name and symbol. The HGNC database, previously known as Genew, contains over 22,000 public records with approved human gene nomenclature and associated information. The database has undergone major improvements throughout the last year, is publicly available for online searching at http://www.gene.ucl.ac.uk/cgi-bin/nomenclature/searchgenes.pl and has a new custom downloads interface at ht...

  4. HERVd: the Human Endogenous Retrovirus Database: update

    Czech Academy of Sciences Publication Activity Database

    Pačes, Jan; Pavlíček, A.; Zíka, Radek; Jurka, J.; Pačes, Václav

    2004-01-01

    Roč. 32, č. 1 (2004), s. 50-50. ISSN 0305-1048 R&D Projects: GA MŠk LN00A079 Institutional research plan: CEZ:AV0Z5052915 Keywords : human * endogenous retrovirus * database Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 7.260, year: 2004

  5. 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

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

    OpenAIRE

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

    2015-01-01

    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 wit...

  7. PGSB PlantsDB: updates to the database framework for comparative plant genome research.

    Science.gov (United States)

    Spannagl, Manuel; Nussbaumer, Thomas; Bader, Kai C; Martis, Mihaela M; Seidel, Michael; Kugler, Karl G; Gundlach, Heidrun; Mayer, Klaus F X

    2016-01-01

    PGSB (Plant Genome and Systems Biology: formerly MIPS) PlantsDB (http://pgsb.helmholtz-muenchen.de/plant/index.jsp) is a database framework for the comparative analysis and visualization of plant genome data. The resource has been updated with new data sets and types as well as specialized tools and interfaces to address user demands for intuitive access to complex plant genome data. In its latest incarnation, we have re-worked both the layout and navigation structure and implemented new keyword search options and a new BLAST sequence search functionality. Actively involved in corresponding sequencing consortia, PlantsDB has dedicated special efforts to the integration and visualization of complex triticeae genome data, especially for barley, wheat and rye. We enhanced CrowsNest, a tool to visualize syntenic relationships between genomes, with data from the wheat sub-genome progenitor Aegilops tauschii and added functionality to the PGSB RNASeqExpressionBrowser. GenomeZipper results were integrated for the genomes of barley, rye, wheat and perennial ryegrass and interactive access is granted through PlantsDB interfaces. Data exchange and cross-linking between PlantsDB and other plant genome databases is stimulated by the transPLANT project (http://transplantdb.eu/). PMID:26527721

  8. Update transport - A new technique for update synchronization in replicated database systems

    Science.gov (United States)

    Singhal, Mukesh

    1990-01-01

    A fully distributed approach to update synchronization is presented where each site completely executes every update. This approach has several features-higher resiliency to different kinds of failures, higher parallelism, improved response to user requests, and low communication overhead. A fully distributed algorithm for concurrency control obtained by rehashing a previously published semidistributed algorithm into the fully distributed model of update execution is presented. A performance model of replicated database systems is presented and used to study the performance of the proposed algorithm and its semidistributed version. The results of the performance study reveal that the proposed approach can substantially improve the performance at the cost of moderate input/output overhead.

  9. The BioGRID interaction database: 2015 update

    OpenAIRE

    Chatr-aryamontri, Andrew; Breitkreutz, Bobby-Joe; Oughtred, Rose; Boucher, Lorrie; Heinicke, Sven; Chen, Daici; Stark, Chris; Breitkreutz, Ashton; Kolas, Nadine; O'Donnell, Lara; Reguly, Teresa; Nixon, Julie; Ramage, Lindsay; Winter, Andrew; Sellam, Adnane

    2014-01-01

    The Biological General Repository for Interaction Datasets (BioGRID: http://thebiogrid.org) is an open access database that houses genetic and protein interactions curated from the primary biomedical literature for all major model organism species and humans. As of September 2014, the BioGRID contains 749 912 interactions as drawn from 43 149 publications that represent 30 model organisms. This interaction count represents a 50% increase compared to our previous 2013 BioGRID update. BioGRID d...

  10. 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.

  11. The GOA database: gene Ontology annotation updates for 2015.

    Science.gov (United States)

    Huntley, Rachael P; Sawford, Tony; Mutowo-Meullenet, Prudence; Shypitsyna, Aleksandra; Bonilla, Carlos; Martin, Maria J; O'Donovan, Claire

    2015-01-01

    The Gene Ontology Annotation (GOA) resource (http://www.ebi.ac.uk/GOA) provides evidence-based Gene Ontology (GO) annotations to proteins in the UniProt Knowledgebase (UniProtKB). Manual annotations provided by UniProt curators are supplemented by manual and automatic annotations from model organism databases and specialist annotation groups. GOA currently supplies 368 million GO annotations to almost 54 million proteins in more than 480,000 taxonomic groups. The resource now provides annotations to five times the number of proteins it did 4 years ago. As a member of the GO Consortium, we adhere to the most up-to-date Consortium-agreed annotation guidelines via the use of quality control checks that ensures that the GOA resource supplies high-quality functional information to proteins from a wide range of species. Annotations from GOA are freely available and are accessible through a powerful web browser as well as a variety of annotation file formats. PMID:25378336

  12. The updated IAEA database of natural matrix reference materials

    International Nuclear Information System (INIS)

    The International Atomic Energy Agency (IAEA) maintains a database of biological and environmental reference materials of natural origin (human and animal tissues, foods, plants, soils, sediments, etc.) for trace elements, radionuclides, stable isotopes, organic contaminants and other related measurands. The purpose is to help analysts to select reference materials for quality assurance purposes that match as closely as possible (i.e., with respect to matrix type and concentrations of the measurands of interest) the real samples that are to be analyzed. Former versions of this database were prepared in co-operation with the United Nations Environment Programme (UNEP), and provided as hardcopies free of charge. The latest version was from 1995. More recently the database bas been updated by the IAEA so that it now contains more than 22,500 values (mass fraction or concentration) for 660 different measurands and 1,705 reference materials developed by 56 producers from 22 countries. An overview of the structure and content of the database and of the two ways it may be browsed is given. Emphasis is given to reference materials that are intended to verifying analysis for radioanalytical measurements. The database is soon accessible on-line, cost-free, via the internet. (author)

  13. TranscriptomeBrowser: a powerful and flexible toolbox to explore productively the transcriptional landscape of the Gene Expression Omnibus database.

    Directory of Open Access Journals (Sweden)

    Fabrice Lopez

    Full Text Available BACKGROUND: As public microarray repositories are constantly growing, we are facing the challenge of designing strategies to provide productive access to the available data. METHODOLOGY: We used a modified version of the Markov clustering algorithm to systematically extract clusters of co-regulated genes from hundreds of microarray datasets stored in the Gene Expression Omnibus database (n = 1,484. This approach led to the definition of 18,250 transcriptional signatures (TS that were tested for functional enrichment using the DAVID knowledgebase. Over-representation of functional terms was found in a large proportion of these TS (84%. We developed a JAVA application, TBrowser that comes with an open plug-in architecture and whose interface implements a highly sophisticated search engine supporting several Boolean operators (http://tagc.univ-mrs.fr/tbrowser/. User can search and analyze TS containing a list of identifiers (gene symbols or AffyIDs or associated with a set of functional terms. CONCLUSIONS/SIGNIFICANCE: As proof of principle, TBrowser was used to define breast cancer cell specific genes and to detect chromosomal abnormalities in tumors. Finally, taking advantage of our large collection of transcriptional signatures, we constructed a comprehensive map that summarizes gene-gene co-regulations observed through all the experiments performed on HGU133A Affymetrix platform. We provide evidences that this map can extend our knowledge of cellular signaling pathways.

  14. External Scientific Report - Updated food composition database for nutrient intake

    OpenAIRE

    Roe, M. A.; Pakkala, H.; Finglas, P.M.; Oliveira, Luisa; Dias, M. Graça; On behalf of the project consortium

    2013-01-01

    This report is the final report of the EFSA contract CFT/EFSA/DCM/2011/03. The aim of the project was to provide EFSA with an updated food composition database covering approximately 1750 foods in combination with additional FoodEx2 facet descriptors included in the EFSA FoodEx2 classification system, and to expand the dataset to include harmonised information on the most common composite recipes of European countries and harmonised information on food supplements. Proposals for models of nut...

  15. Federation views as a basis for querying and updating database federations

    OpenAIRE

    Balsters, H.; Brock, E.O. de

    2003-01-01

    This paper addresses the problem of how to query and update so-called database federations. A database federation provides for tight coupling of a collection of heterogeneous component databases into a global integrated system. This problem of querying and updating a database federation is tackled by describing a logical architecture and a general semantic framework for precise specification of such database federations, with the aim to provide a basis for implementing a federation by means o...

  16. 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.

  17. The BioGRID interaction database: 2015 update.

    Science.gov (United States)

    Chatr-Aryamontri, Andrew; Breitkreutz, Bobby-Joe; Oughtred, Rose; Boucher, Lorrie; Heinicke, Sven; Chen, Daici; Stark, Chris; Breitkreutz, Ashton; Kolas, Nadine; O'Donnell, Lara; Reguly, Teresa; Nixon, Julie; Ramage, Lindsay; Winter, Andrew; Sellam, Adnane; Chang, Christie; Hirschman, Jodi; Theesfeld, Chandra; Rust, Jennifer; Livstone, Michael S; Dolinski, Kara; Tyers, Mike

    2015-01-01

    The Biological General Repository for Interaction Datasets (BioGRID: http://thebiogrid.org) is an open access database that houses genetic and protein interactions curated from the primary biomedical literature for all major model organism species and humans. As of September 2014, the BioGRID contains 749,912 interactions as drawn from 43,149 publications that represent 30 model organisms. This interaction count represents a 50% increase compared to our previous 2013 BioGRID update. BioGRID data are freely distributed through partner model organism databases and meta-databases and are directly downloadable in a variety of formats. In addition to general curation of the published literature for the major model species, BioGRID undertakes themed curation projects in areas of particular relevance for biomedical sciences, such as the ubiquitin-proteasome system and various human disease-associated interaction networks. BioGRID curation is coordinated through an Interaction Management System (IMS) that facilitates the compilation interaction records through structured evidence codes, phenotype ontologies, and gene annotation. The BioGRID architecture has been improved in order to support a broader range of interaction and post-translational modification types, to allow the representation of more complex multi-gene/protein interactions, to account for cellular phenotypes through structured ontologies, to expedite curation through semi-automated text-mining approaches, and to enhance curation quality control. PMID:25428363

  18. 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.

  19. 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.

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

    OpenAIRE

    Wang, Donghua; Liu, Jianjun

    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 ...

  1. rVarBase: an updated database for regulatory features of human variants

    OpenAIRE

    Guo, Liyuan; Du, Yang; Qu, Susu; Wang, Jing

    2015-01-01

    We present here the rVarBase database (http://rv.psych.ac.cn), an updated version of the rSNPBase database, to provide reliable and detailed regulatory annotations for known and novel human variants. This update expands the database to include additional types of human variants, such as copy number variations (CNVs) and novel variants, and include additional types of regulatory features. Now rVarBase annotates variants in three dimensions: chromatin states of the surrounding regions, overlapp...

  2. 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 ...

  3. Trajectory Browser Website

    Science.gov (United States)

    Foster, Cyrus; Jaroux, Belgacem A.

    2012-01-01

    The Trajectory Browser is a web-based tool developed at the NASA Ames Research Center to be used for the preliminary assessment of trajectories to small-bodies and planets and for providing relevant launch date, time-of-flight and V requirements. The site hosts a database of transfer trajectories from Earth to asteroids and planets 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. 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 as soon as development is complete.

  4. 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.

  5. 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/

  6. 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.

  7. Using geographical data browsers in a networked environment

    Energy Technology Data Exchange (ETDEWEB)

    Mackey, H.E. [Westinghouse Savannah River Co., Aiken, SC (United States); Bresnaham, P.J.; Cowen, D.J.; Ehler, G.D.; King, E.; Shirley, W.L.; White, T. [South Carolina Univ., Columbia, SC (United States). Humanities and Social Sciences Computing Lab.

    1994-09-01

    The rapid development of spatial information technology has promoted a large variety of applications. The use of diverse,datasets in these applications has often been limited to single-platform analysis and distribution. Recent improvements in networking capabilities have led to the possibility of cross-platform access to geographical information and improved interoperability. To promote access to various databases and limit unsecured use of datasets across networks, spatial data browsers have been developed to allow simple analysis of data void of permanent update. Furthermore, applicable network configurations have greatly improved dissemination of views of existing data and individual use of distributed heterogeneous databases. Various user interfaces and networking applications can be combined to maximize data flow between storage media and data browsing software. This paper reviews the use of such distributed data browsing systems and the characteristics of platform-specific access and performance. Distinct discussions will review both geographical browser interface and networking services components. The selection of networking and software solutions was based on the development of a data browsing system for a twenty-user environment of mixed platforms (Unix, DOS, and Macintosh). Seventy percent of the user environment, however, was Macintosh-based.

  8. Progress on Updating the 1961-1990 National Solar Radiation Database

    Science.gov (United States)

    Renne, D.; Wilcox, S.; Marion, B.; George, R.; Myers, D.

    2003-01-01

    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 1961-1990 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.

  9. 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.

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

    OpenAIRE

    Mark Morlino; Ilana Kingsley

    2008-01-01

    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.

  11. TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks

    Directory of Open Access Journals (Sweden)

    Lepoivre Cyrille

    2012-01-01

    of heterogeneous biological information and is a productive avenue in generating new hypotheses. The second objective of InteractomeBrowser is to fill the gap between interaction databases and dynamic modeling. It is thus compatible with the network analysis software Cytoscape and with the Gene Interaction Network simulation software (GINsim. We provide examples underlying the benefits of this visualization tool for large gene set analysis related to thymocyte differentiation. Conclusions The InteractomeBrowser plugin is a powerful tool to get quick access to a knowledge database that includes both predicted and validated molecular interactions. InteractomeBrowser is available through the TranscriptomeBrowser framework and can be found at: http://tagc.univ-mrs.fr/tbrowser/. Our database is updated on a regular basis.

  12. 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...

  13. 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

  14. Genew: the Human Gene Nomenclature Database, 2004 updates

    OpenAIRE

    Wain, H. M.; Lush, M. J.; Ducluzeau, F.; Khodiyar, V. K.; Povey, S

    2004-01-01

    Genew, the Human Gene Nomenclature Database http://www.gene.ucl.ac.uk/cgi-bin/nomenclature/searchgenes.pl is the only resource that provides data for all human genes that have approved symbols. It is managed by the HUGO Gene Nomenclature Committee (HGNC) as a confidential database, containing over 22 000 records, 75% of which are represented online by a publicly searchable text file. Since 2002, there have been significant improvements to the Genew search engine. Additionally we have increase...

  15. 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...

  16. On the Abductive or Deductive Nature of Database Schema Validation and Update Processing Problems

    OpenAIRE

    Teniente, Ernest; Urpi, Toni

    2003-01-01

    We show that database schema validation and update processing problems such as view updating, materialized view maintenance, integrity constraint checking, integrity constraint maintenance or condition monitoring can be classified as problems of either abductive or deductive nature, according to the reasoning paradigm that inherently suites them. This is done by performing abductive and deductive reasoning on the event rules [Oli91], a set of rules that define the difference between consecuti...

  17. 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...... related to the sequence with high accuracy. The updated predictions system is developed using data from the new version of the 3D-ALI database of aligned protein structures and thus is giving more reliable and more detailed predictions than the previous DEF system....

  18. 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.

  19. Development of bayesian update database for PRA data analysis (BUDDA)

    International Nuclear Information System (INIS)

    It is necessary what independent plant PRA (Probabilistic Risk Assessment) for risk informed applications of nuclear power plant. Therefore, it must build the environment that the utilities can efficiently collect PRA data, and can estimate PRA parameters without statistical expertise. This report explains development of failure events analysis DB for PRA failure rate computation using bayesian update technique. BUDDA has the function to compute failure rate with a combination of multiple DB (include the pre-installed data based on NUCIA), and to manage independent plant DB (failure events, number of components, operation time, number of demand , prior distributions). (author)

  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. Updating land cover databases using a single very high resolution satellite image

    OpenAIRE

    Gressin, A.; Mallet, C; Vincent, N.; N. Paparoditis

    2013-01-01

    Image change detection has been extensively tackled in the literature in various domains, and in particular for remote sensing purposes. Indeed, very high resolution geospatial images are nowadays ubiquitous and can be used to update existing 2D and 3D geographical databases. Such databases can be projected into the image space, by a rasterization step. Therefore, they provide 2D label maps that can be subsequently compared with classifications resulting for geospatial image processing. In th...

  2. EU database on acrylamide levels in food ? update and critical review on data collection

    OpenAIRE

    Wenzl, Thomas; Anklam, Elke

    2007-01-01

    Abstract The European Commission?s Directorate General Joint Research Centre has been collecting data produced in EU Member States on the acrylamide (AA) content of food since 2003. More than 9000 individual data have been received from official food control laboratories directly or via their Competent Authorities, and from the food industry. Before entering the database, the data were assessed for their reliability. This paper presents an update of the database as well as results ...

  3. The GOA database: Gene Ontology annotation updates for 2015

    OpenAIRE

    Huntley, Rachael P; Sawford, Tony; Mutowo-Meullenet, Prudence; Shypitsyna, Aleksandra; Bonilla, Carlos; Martin, Maria J.; O'Donovan, Claire

    2014-01-01

    The Gene Ontology Annotation (GOA) resource (http://www.ebi.ac.uk/GOA) provides evidence-based Gene Ontology (GO) annotations to proteins in the UniProt Knowledgebase (UniProtKB). Manual annotations provided by UniProt curators are supplemented by manual and automatic annotations from model organism databases and specialist annotation groups. GOA currently supplies 368 million GO annotations to almost 54 million proteins in more than 480 000 taxonomic groups. The resource now provides annotat...

  4. The BioGRID Interaction Database: 2011 update

    OpenAIRE

    Stark, Chris; Breitkreutz, Bobby-Joe; Chatr-aryamontri, Andrew; Boucher, Lorrie; Oughtred, Rose; Livstone, Michael S.; Nixon, Julie; Van Auken, Kimberly; Wang, Xiaodong; Shi, Xiaoqi; Reguly, Teresa; Rust, Jennifer M.; Winter, Andrew; Dolinski, Kara; Tyers, Mike

    2010-01-01

    The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (http://www.thebiogrid.org). BioGRID currently holds 347 966 interactions (170 162 genetic, 177 804 protein) curated from both high-throughput data sets and individual focused studies, as derived from over 23 000 publications in the primary literature. Complete coverage of the entire literature is maintain...

  5. The BioGRID Interaction Database: 2008 update

    OpenAIRE

    Breitkreutz, Bobby-Joe; Stark, Chris; Reguly, Teresa; Boucher, Lorrie; Breitkreutz, Ashton; Livstone, Michael; Oughtred, Rose; Daniel H Lackner; Bähler, Jürg; Wood, Valerie; Dolinski, Kara; Tyers, Mike

    2007-01-01

    The Biological General Repository for Interaction Datasets (BioGRID) database (http://www.thebiogrid.org) was developed to house and distribute collections of protein and genetic interactions from major model organism species. BioGRID currently contains over 198 000 interactions from six different species, as derived from both high-throughput studies and conventional focused studies. Through comprehensive curation efforts, BioGRID now includes a virtually complete set of interactions reported...

  6. The BioGRID interaction database: 2008 update

    OpenAIRE

    B. J. Breitkreutz; Stark, C.; Reguly, T.; Boucher, L.; Breitkreutz, A.; Livstone, M.; Oughtred, R.; Lackner, D. H.; Bahler, J.; Wood, V; Dolinski, K; Tyers, M

    2008-01-01

    The Biological General Repository for Interaction Datasets ( BioGRID) database (http://www.thebiogrid.org) was developed to house and distribute collections of protein and genetic interactions from major model organism species. BioGRID currently contains over 198 000 interactions from six different species, as derived from both high-throughput studies and conventional focused studies. Through comprehensive curation efforts, BioGRID now includes a virtually complete set of interactions reporte...

  7. The BioGRID Interaction Database: 2011 update

    OpenAIRE

    Stark, Chris; Breitkreutz, Bobby-Joe; Chatr-aryamontri, Andrew; Boucher, Lorrie; Oughtred, Rose; Livstone, Michael S.; Nixon, Julie; Van Auken, Kimberly; Wang, Xiaodong; Shi, Xiaoqi; Reguly, Teresa; Rust, Jennifer M.; Winter, Andrew; Dolinski, Kara; Tyers, Mike

    2011-01-01

    The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (http://www.thebiogrid.org). BioGRID currently holds 347 966 interactions (170 162 genetic, 177 804 protein) curated from both high-throughput data sets and individual focused studies, as derived from over 23 000 publications in the primary literature. Complete coverag...

  8. The BioGRID Interaction Database: 2011 update

    OpenAIRE

    Stark, Chris; Breitkreutz, Bobby-Joe; Chatr-aryamontri, Andrew; Boucher, Lorrie; Oughtred, Rose; Livstone, Michael S.; Nixon, Julie; Van Auken, Kimberly; Wang, Xiaodong; Shi, Xiaoqi; Reguly, Teresa; Rust, Jennifer M.; Winter, Andrew; Dolinski, Kara; Tyers, Mike

    2011-01-01

    The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (http://www.thebiogrid.org). BioGRID currently holds 347 966 interactions (170 162 genetic, 177 804 protein) curated from both high-throughput data sets and individual focused studies, as derived from over 23 000 publications in the primary literature. Complete coverage of the entire literature is maintain...

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

    OpenAIRE

    Jung, Sook; Stephen P Ficklin; 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.

    2013-01-01

    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 ge...

  10. PROPHECY—a yeast phenome database, update 2006

    OpenAIRE

    Fernandez-Ricaud, Luciano; Warringer, Jonas; Ericson, Elke; Glaab, Kerstin; Davidsson, Pär; Nilsson, Fabian; Kemp, Graham J. L.; Nerman, Olle; Blomberg, Anders

    2006-01-01

    Connecting genotype to phenotype is fundamental in biomedical research and in our understanding of disease. Phenomics—the large-scale quantitative phenotypic analysis of genotypes on a genome-wide scale—connects automated data generation with the development of novel tools for phenotype data integration, mining and visualization. Our yeast phenomics database PROPHECY is available at . Via phenotyping of 984 heterozygous diploids for all essential genes the genotypes analysed and presented in ...

  11. The BioGRID Interaction Database: 2011 update.

    Science.gov (United States)

    Stark, Chris; Breitkreutz, Bobby-Joe; Chatr-Aryamontri, Andrew; Boucher, Lorrie; Oughtred, Rose; Livstone, Michael S; Nixon, Julie; Van Auken, Kimberly; Wang, Xiaodong; Shi, Xiaoqi; Reguly, Teresa; Rust, Jennifer M; Winter, Andrew; Dolinski, Kara; Tyers, Mike

    2011-01-01

    The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (http://www.thebiogrid.org). BioGRID currently holds 347,966 interactions (170,162 genetic, 177,804 protein) curated from both high-throughput data sets and individual focused studies, as derived from over 23,000 publications in the primary literature. Complete coverage of the entire literature is maintained for budding yeast (Saccharomyces cerevisiae), fission yeast (Schizosaccharomyces pombe) and thale cress (Arabidopsis thaliana), and efforts to expand curation across multiple metazoan species are underway. The BioGRID houses 48,831 human protein interactions that have been curated from 10,247 publications. Current curation drives are focused on particular areas of biology to enable insights into conserved networks and pathways that are relevant to human health. The BioGRID 3.0 web interface contains new search and display features that enable rapid queries across multiple data types and sources. An automated Interaction Management System (IMS) is used to prioritize, coordinate and track curation across international sites and projects. BioGRID provides interaction data to several model organism databases, resources such as Entrez-Gene and other interaction meta-databases. The entire BioGRID 3.0 data collection may be downloaded in multiple file formats, including PSI MI XML. Source code for BioGRID 3.0 is freely available without any restrictions. PMID:21071413

  12. Using Label Noise Robust Logistic Regression for Automated Updating of Topographic Geospatial Databases

    Science.gov (United States)

    Maas, A.; Rottensteiner, F.; Heipke, C.

    2016-06-01

    Supervised classification of remotely sensed images is a classical method to update topographic geospatial databases. The task requires training data in the form of image data with known class labels, whose generation is time-consuming. To avoid this problem one can use the labels from the outdated database for training. As some of these labels may be wrong due to changes in land cover, one has to use training techniques that can cope with wrong class labels in the training data. In this paper we adapt a label noise tolerant training technique to the problem of database updating. No labelled data other than the existing database are necessary. The resulting label image and transition matrix between the labels can help to update the database and to detect changes between the two time epochs. Our experiments are based on different test areas, using real images with simulated existing databases. Our results show that this method can indeed detect changes that would remain undetected if label noise were not considered in training.

  13. Updated folate data in the Dutch Food Composition Database and implications for intake estimates

    Directory of Open Access Journals (Sweden)

    Susanne Westenbrink

    2012-04-01

    Full Text Available Background and objective: Nutrient values are influenced by the analytical method used. Food folate measured by high performance liquid chromatography (HPLC or by microbiological assay (MA yield different results, with in general higher results from MA than from HPLC. This leads to the question of how to deal with different analytical methods in compiling standardised and internationally comparable food composition databases? A recent inventory on folate in European food composition databases indicated that currently MA is more widely used than HPCL. Since older Dutch values are produced by HPLC and newer values by MA, analytical methods and procedures for compiling folate data in the Dutch Food Composition Database (NEVO were reconsidered and folate values were updated. This article describes the impact of this revision of folate values in the NEVO database as well as the expected impact on the folate intake assessment in the Dutch National Food Consumption Survey (DNFCS. Design: The folate values were revised by replacing HPLC with MA values from recent Dutch analyses. Previously MA folate values taken from foreign food composition tables had been recalculated to the HPLC level, assuming a 27% lower value from HPLC analyses. These recalculated values were replaced by the original MA values. Dutch HPLC and MA values were compared to each other. Folate intake was assessed for a subgroup within the DNFCS to estimate the impact of the update. Results: In the updated NEVO database nearly all folate values were produced by MA or derived from MA values which resulted in an average increase of 24%. The median habitual folate intake in young children was increased by 11–15% using the updated folate values. Conclusion: The current approach for folate in NEVO resulted in more transparency in data production and documentation and higher comparability among European databases. Results of food consumption surveys are expected to show higher folate intakes

  14. 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.

  15. 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.

  16. 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.

  17. Fast Updates on Read-Optimized Databases Using Multi-Core CPUs

    CERN Document Server

    Krueger, Jens; Grund, Martin; Satish, Nadathur; Schwalb, David; Chhugani, Jatin; Plattner, Hasso; Dubey, Pradeep; Zeier, Alexander

    2011-01-01

    Read-optimized columnar databases use differential updates to handle writes by maintaining a separate write-optimized delta partition which is periodically merged with the read-optimized and compressed main partition. This merge process introduces significant overheads and unacceptable downtimes in update intensive systems, aspiring to combine transactional and analytical workloads into one system. In the first part of the paper, we report data analyses of 12 SAP Business Suite customer systems. In the second half, we present an optimized merge process reducing the merge overhead of current systems by a factor of 30. Our linear-time merge algorithm exploits the underlying high compute and bandwidth resources of modern multi-core CPUs with architecture-aware optimizations and efficient parallelization. This enables compressed in-memory column stores to handle the transactional update rate required by enterprise applications, while keeping properties of read-optimized databases for analytic-style queries.

  18. The BioGRID interaction database: 2013 update.

    Science.gov (United States)

    Chatr-Aryamontri, Andrew; Breitkreutz, Bobby-Joe; Heinicke, Sven; Boucher, Lorrie; Winter, Andrew; Stark, Chris; Nixon, Julie; Ramage, Lindsay; Kolas, Nadine; O'Donnell, Lara; Reguly, Teresa; Breitkreutz, Ashton; Sellam, Adnane; Chen, Daici; Chang, Christie; Rust, Jennifer; Livstone, Michael; Oughtred, Rose; Dolinski, Kara; Tyers, Mike

    2013-01-01

    The Biological General Repository for Interaction Datasets (BioGRID: http//thebiogrid.org) is an open access archive of genetic and protein interactions that are curated from the primary biomedical literature for all major model organism species. As of September 2012, BioGRID houses more than 500 000 manually annotated interactions from more than 30 model organisms. BioGRID maintains complete curation coverage of the literature for the budding yeast Saccharomyces cerevisiae, the fission yeast Schizosaccharomyces pombe and the model plant Arabidopsis thaliana. A number of themed curation projects in areas of biomedical importance are also supported. BioGRID has established collaborations and/or shares data records for the annotation of interactions and phenotypes with most major model organism databases, including Saccharomyces Genome Database, PomBase, WormBase, FlyBase and The Arabidopsis Information Resource. BioGRID also actively engages with the text-mining community to benchmark and deploy automated tools to expedite curation workflows. BioGRID data are freely accessible through both a user-defined interactive interface and in batch downloads in a wide variety of formats, including PSI-MI2.5 and tab-delimited files. BioGRID records can also be interrogated and analyzed with a series of new bioinformatics tools, which include a post-translational modification viewer, a graphical viewer, a REST service and a Cytoscape plugin. PMID:23203989

  19. 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

  20. 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

  1. Development of sorption database (JAEA-SDB). Update of sorption data including soil and cement systems

    International Nuclear Information System (INIS)

    Sorption of radionuclides in buffer materials (bentonite) and rocks is the key process in the safe geological disposal of radioactive waste, because migration of radionuclides in this barrier is expected to be controlled by sorption processes. Distribution coefficient (Kd) is therefore important parameter in the performance assessment (PA) of geological disposal. The sorption database including extensive compilations of Kd data measured by batch sorption experiments plays key roles in PA-related Kd setting and predictive model development under a variety of geochemical conditions. For this purpose, Japan Atomic Energy Agency (JAEA) has developed sorption database (JAEA-SDB) as an important basis for the PA of high-level radioactive waste disposal. This sorption database was firstly developed for the H12 PA, and was improved and updated in view of potential future data needs, focusing on assuring the desired quality level and testing the usefulness of the databases for possible applications to PA-related parameter setting. The present report focuses on updating of the sorption database (JAEA-SDB) by adding Kd data for various systems including soil and cement systems, to apply JAEA-SDB for the PA-related Kd setting for disposal of low level radioactive wastes including TRU wastes and the evaluation of radionuclide transport in surface soil systems. The updated data includes Kd data for soil and cement systems extracted from mainly previous published database, and Kd data related to our recent activities on the Kd setting and mechanistic model development. As a result, 16,000 Kd data from 334 references are added, total Kd values in the JAEA-SDB are about 46,000. The updated JAEA-SDB is expected to make it possible to obtain quick overview of the available data, and to have suitable access to the respective data for the performance assessment of various types of radioactive waste. (author)

  2. 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...

  3. ZFIN, The zebrafish model organism database: Updates and new directions.

    Science.gov (United States)

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

    2015-08-01

    The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for genetic and genomic data from zebrafish (Danio rerio) research. ZFIN staff curate detailed information about genes, mutants, genotypes, reporter lines, sequences, constructs, antibodies, knockdown reagents, expression patterns, phenotypes, gene product function, and orthology from publications. Researchers can submit mutant, transgenic, expression, and phenotype data directly to ZFIN and use the ZFIN Community Wiki to share antibody and protocol information. Data can be accessed through topic-specific searches, a new site-wide search, and the data-mining resource ZebrafishMine (http://zebrafishmine.org). Data download and web service options are also available. ZFIN collaborates with major bioinformatics organizations to verify and integrate genomic sequence data, provide nomenclature support, establish reciprocal links, and participate in the development of standardized structured vocabularies (ontologies) used for data annotation and searching. ZFIN-curated gene, function, expression, and phenotype data are available for comparative exploration at several multi-species resources. The use of zebrafish as a model for human disease is increasing. ZFIN is supporting this growing area with three major projects: adding easy access to computed orthology data from gene pages, curating details of the gene expression pattern changes in mutant fish, and curating zebrafish models of human diseases. PMID:26097180

  4. PROPHECY--a yeast phenome database, update 2006.

    Science.gov (United States)

    Fernandez-Ricaud, Luciano; Warringer, Jonas; Ericson, Elke; Glaab, Kerstin; Davidsson, Pär; Nilsson, Fabian; Kemp, Graham J L; Nerman, Olle; Blomberg, Anders

    2007-01-01

    Connecting genotype to phenotype is fundamental in biomedical research and in our understanding of disease. Phenomics--the large-scale quantitative phenotypic analysis of genotypes on a genome-wide scale--connects automated data generation with the development of novel tools for phenotype data integration, mining and visualization. Our yeast phenomics database PROPHECY is available at http://prophecy.lundberg.gu.se. Via phenotyping of 984 heterozygous diploids for all essential genes the genotypes analysed and presented in PROPHECY have been extended and now include all genes in the yeast genome. Further, phenotypic data from gene overexpression of 574 membrane spanning proteins has recently been included. To facilitate the interpretation of quantitative phenotypic data we have developed a new phenotype display option, the Comparative Growth Curve Display, where growth curve differences for a large number of mutants compared with the wild type are easily revealed. In addition, PROPHECY now offers a more informative and intuitive first-sight display of its phenotypic data via its new summary page. We have also extended the arsenal of data analysis tools to include dynamic visualization of phenotypes along individual chromosomes. PROPHECY is an initiative to enhance the growing field of phenome bioinformatics. PMID:17148481

  5. 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 ...

  6. Design and development of intelligent video database based on Web browser%Web浏览器下的智能视频数据库设计与开发

    Institute of Scientific and Technical Information of China (English)

    刘丽斐; 赵龙

    2014-01-01

    为实现对大型视频分析系统的视频文件进行智能管理,设计了基于web浏览器的智能视频数据库。该数据库利用PHP、HTML以及CSS语言设计前端,利用MySQL搭建后台并采用脚本语言实现前后端信息交互。数据库采用web的方式发布测试素材,支持用户身份认证和按照视频素材特征关键字进行查询检索。经测试,智能数据库满足了用户根据关键字搜索目标视频的要求,提高了视频数据查找的效率。同时数据库实现了基于web前端发布素材并且分类存储,做到了视频数据的智能化管理。%In order to realize intelligent management of video files needed for large video analysis systems, a new method is proposed based on Web browser for the design and development of an intelligent video database. The front end is designed using PHP, HTML and CSS language and the back using MySQL. The information interaction be⁃tween the back and front is realized by using a scripting language. The database publishes test material with the method of Web, supports the user identity authentication and keyword query retrieval according to the characteris⁃tics of video material. By testing, the intelligent database can meet the requirement of the keyword search, which greatly improves the efficiency of video data search. Meanwhile, intelligent database supports material release on the front⁃end web and classified storage for the database administrator, and realizes the intelligent management of video data.

  7. 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.

  8. Second Generation MOSAIC:A Novel Mechanism Based on Reference Database for Map Updating

    Science.gov (United States)

    Hu, G.; Bignone, F.

    2011-08-01

    A totally new automatic workflow mechanism, named Second generation Mosaic module, based on the well-known Pixel Factory system, will be introduced here, which enables existing digital orthoimages and mosaics to be quickly updated. The process extracts all required parameters from the reference database to be able to perform automatic bundle adjustment and radiometric adaptation.In this paper, two examples for both satellite data and aerial data processed based on this mechanism will be presented here and discussed. Finally, the cost reduction will also be analysed according to the real mapping updating project.In a final statement, this paper will present an integrated solution named second generation mosaic module based on the well-known Pixel Factory system which is completely dedicated to fast processing of photogrammetric products Thanks to this integrated hardware and software solution, it is even possible to manage large data volume quickly in order to have precise map updating information as soon as possible after acquisition.

  9. PGSB PlantsDB: updates to the database framework for comparative plant genome research

    OpenAIRE

    Spannagl, Manuel; Nussbaumer, Thomas; Bader, Kai C.; Martis, Mihaela-Maria; Seidel, Michael; Kugler, Karl G; Gundlach, Heidrun; Mayer, Klaus F. X.

    2016-01-01

    PGSB (Plant Genome and Systems Biology: formerly MIPS) PlantsDB (http://pgsb.helmholtz-muenchen.de/plant/index.jsp) is a database framework for the comparative analysis and visualization of plant genome data. The resource has been updated with new data sets and types as well as specialized tools and interfaces to address user demands for intuitive access to complex plant genome data. In its latest incarnation, we have re-worked both the layout and navigation structure and implemented new keyw...

  10. PGSB PlantsDB: updates to the database framework for comparative plant genome research

    OpenAIRE

    Spannagl, Manuel; Nussbaumer, Thomas; Bader, Kai C.; Martis, Mihaela M.; Seidel, Michael; Kugler, Karl G.; Gundlach, Heidrun; Mayer, Klaus F. X

    2015-01-01

    PGSB (Plant Genome and Systems Biology: formerly MIPS) PlantsDB (http://pgsb.helmholtz-muenchen.de/plant/index.jsp) is a database framework for the comparative analysis and visualization of plant genome data. The resource has been updated with new data sets and types as well as specialized tools and interfaces to address user demands for intuitive access to complex plant genome data. In its latest incarnation, we have re-worked both the layout and navigation structure and implemented new keyw...

  11. The human genome browser at UCSC.

    Science.gov (United States)

    Kent, W James; Sugnet, Charles W; Furey, Terrence S; Roskin, Krishna M; Pringle, Tom H; Zahler, Alan M; Haussler, David

    2002-06-01

    As vertebrate genome sequences near completion and research refocuses to their analysis, the issue of effective genome annotation display becomes critical. A mature web tool for rapid and reliable display of any requested portion of the genome at any scale, together with several dozen aligned annotation tracks, is provided at http://genome.ucsc.edu. This browser displays assembly contigs and gaps, mRNA and expressed sequence tag alignments, multiple gene predictions, cross-species homologies, single nucleotide polymorphisms, sequence-tagged sites, radiation hybrid data, transposon repeats, and more as a stack of coregistered tracks. Text and sequence-based searches provide quick and precise access to any region of specific interest. Secondary links from individual features lead to sequence details and supplementary off-site databases. One-half of the annotation tracks are computed at the University of California, Santa Cruz from publicly available sequence data; collaborators worldwide provide the rest. Users can stably add their own custom tracks to the browser for educational or research purposes. The conceptual and technical framework of the browser, its underlying MYSQL database, and overall use are described. The web site currently serves over 50,000 pages per day to over 3000 different users. PMID:12045153

  12. 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

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

    International Nuclear Information System (INIS)

    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

  14. An efficient algorithm for updating regular expression indexes in RDF databases.

    Science.gov (United States)

    Lee, Jinsoo; Kasperovics, Romans; Han, Wook-Shin; Lee, Jeong-Hoon; Kim, Min Soo; Cho, Hune

    2015-01-01

    The Resource Description Framework (RDF) is widely used for sharing biomedical data, such as gene ontology or the online protein database UniProt. SPARQL is a native query language for RDF, featuring regular expressions in queries for which exact values are either irrelevant or unknown. The use of regular expression indexes in SPARQL query processing improves the performance of queries containing regular expressions by up to two orders of magnitude. In this study, we address the update operation for regular expression indexes in RDF databases. We identify major performance problems of straightforward index update algorithms and propose a new algorithm that utilises unique properties of regular expression indexes to increase performance. Our contributions can be summarised as follows: (1) we propose an efficient update algorithm for regular expression indexes in RDF databases, (2) we build a prototype system for the proposed algorithm in C++ and (3) we conduct extensive experiments demonstrating the improvement of our algorithm over the straightforward approaches by an order of magnitude. PMID:26255383

  15. Monitoring urban land cover change by updating the national land cover database impervious surface products

    Science.gov (United States)

    Xian, G.; Homer, C.

    2009-01-01

    The U.S. Geological Survey (USGS) National Land Cover Database (NLCD) 2001 is widely used as a baseline for national land cover and impervious conditions. To ensure timely and relevant data, it is important to update this base to a more recent time period. A prototype method was developed to update the land cover and impervious surface by individual Landsat path and row. This method updates NLCD 2001 to a nominal date of 2006 by using both Landsat imagery and data from NLCD 2001 as the baseline. Pairs of Landsat scenes in the same season from both 2001 and 2006 were acquired according to satellite paths and rows and normalized to allow calculation of change vectors between the two dates. Conservative thresholds based on Anderson Level I land cover classes were used to segregate the change vectors and determine areas of change and no-change. Once change areas had been identified, impervious surface was estimated for areas of change by sampling from NLCD 2001 in unchanged areas. Methods were developed and tested across five Landsat path/row study sites that contain a variety of metropolitan areas. Results from the five study areas show that the vast majority of impervious surface changes associated with urban developments were accurately captured and updated. The approach optimizes mapping efficiency and can provide users a flexible method to generate updated impervious surface at national and regional scales. ?? 2009 IEEE.

  16. 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.

  17. Ling browser: a NLP based browser for linguistic information

    OpenAIRE

    Armağan, Önsel; Armagan, Onsel

    2008-01-01

    Linguistic students and researchers need practical tools providing information about elements of a language to understand its properties and conduct research on that language. Many computer assisted language learning tools have been developed since the emerging of computers. However, none of these tools aim to satisfy the needs of advanced learners. In this thesis, we introduce a tool, LingBrowser, which is an intelligent hyper-text browser that employs natural language processing technology...

  18. rVarBase: an updated database for regulatory features of human variants.

    Science.gov (United States)

    Guo, Liyuan; Du, Yang; Qu, Susu; Wang, Jing

    2016-01-01

    We present here the rVarBase database (http://rv.psych.ac.cn), an updated version of the rSNPBase database, to provide reliable and detailed regulatory annotations for known and novel human variants. This update expands the database to include additional types of human variants, such as copy number variations (CNVs) and novel variants, and include additional types of regulatory features. Now rVarBase annotates variants in three dimensions: chromatin states of the surrounding regions, overlapped regulatory elements and variants' potential target genes. Two new types of regulatory elements (lncRNAs and miRNA target sites) have been introduced to provide additional annotation. Detailed information about variants' overlapping transcription factor binding sites (TFBSs) (often less than 15 bp) within experimentally supported TF-binding regions (∼ 150 bp) is provided, along with the binding motifs of matched TF families. Additional types of extended variants and variant-associated phenotypes were also added. In addition to the enrichment in data content, an element-centric search module was added, and the web interface was refined. In summary, rVarBase hosts more types of human variants and includes more types of up-to-date regulatory information to facilitate in-depth functional research and to provide practical clues for experimental design. PMID:26503253

  19. Tashkent+: Memory-Aware Load Balancing and Update Filtering in Replicated Databases

    OpenAIRE

    Elnikety, Sameh; Dropsho, Steven; Zwaenepoel, Willy

    2007-01-01

    BEST PAPER AWARDWe present a memory-aware load balancing (MALB) technique to dispatch transactions to replicas in a replicated database. Our MALB algorithm exploits knowledge of the working sets of transactions to assign them to replicas in such a way that they execute in main memory, thereby reducing disk I/O. In support of MALB, we introduce a method to estimate the size and the contents of transaction working sets. We also present an optimization called update filtering that reduces the ov...

  20. Update of AMmtDB: a database of multi-aligned Metazoa mitochondrial DNA sequences

    OpenAIRE

    Lanave, Cecilia; Liuni, Sabino; Licciulli, Flavio; Attimonelli, Marcella

    2000-01-01

    The AMmtDB database (http://bio-www.ba.cnr.it:8000/srs6/ ) has been updated by collecting the multi-aligned sequences of Chordata mitochondrial genes coding for proteins and tRNAs. The genes coding for proteins are multi-aligned based on the translated sequences and both the nucleotide and amino acid multi-alignments are provided. AMmtDB data selected through SRS can be viewed and managed using GeneDoc or other programs for the management of multi-aligned data depending on the user’s operativ...

  1. Update of AMmtDB: a database of multi-aligned Metazoa mitochondrial DNA sequences

    OpenAIRE

    Lanave, Cecilia; Licciulli, Flavio; De Robertis, Mariateresa; Marolla, Alessandra; Attimonelli, Marcella

    2002-01-01

    The AMmtDB database (http://bighost.area.ba.cnr.it/mitochondriome) has been updated by collecting the multi-aligned sequences of Chordata and Invertebrata mitochondrial genes coding for proteins and tRNAs. Links to the multi-aligned mtDNA intraspecies variants, collected in VarMmtDB at the Mitochondriome web site, have been introduced. The genes coding for proteins are multi-aligned based on the translated sequences and both the nucleotide and amino acid multi-alignments are provided. AMmtDB ...

  2. 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.

  3. MaizeGDB update: new tools, data and interface for the maize model organism database.

    Science.gov (United States)

    Andorf, Carson M; Cannon, Ethalinda K; Portwood, John L; Gardiner, Jack M; Harper, Lisa C; Schaeffer, Mary L; Braun, Bremen L; Campbell, Darwin A; Vinnakota, Abhinav G; Sribalusu, Venktanaga V; Huerta, Miranda; Cho, Kyoung Tak; Wimalanathan, Kokulapalan; Richter, Jacqueline D; Mauch, Emily D; Rao, Bhavani S; Birkett, Scott M; Sen, Taner Z; Lawrence-Dill, Carolyn J

    2016-01-01

    MaizeGDB is a highly curated, community-oriented database and informatics service to researchers focused on the crop plant and model organism Zea mays ssp. mays. Although some form of the maize community database has existed over the last 25 years, there have only been two major releases. In 1991, the original maize genetics database MaizeDB was created. In 2003, the combined contents of MaizeDB and the sequence data from ZmDB were made accessible as a single resource named MaizeGDB. Over the next decade, MaizeGDB became more sequence driven while still maintaining traditional maize genetics datasets. This enabled the project to meet the continued growing and evolving needs of the maize research community, yet the interface and underlying infrastructure remained unchanged. In 2015, the MaizeGDB team completed a multi-year effort to update the MaizeGDB resource by reorganizing existing data, upgrading hardware and infrastructure, creating new tools, incorporating new data types (including diversity data, expression data, gene models, and metabolic pathways), and developing and deploying a modern interface. In addition to coordinating a data resource, the MaizeGDB team coordinates activities and provides technical support to the maize research community. MaizeGDB is accessible online at http://www.maizegdb.org. PMID:26432828

  4. Web Browsers for Mobile Devices

    OpenAIRE

    Kufa, Jan

    2013-01-01

    In bachelor's thesis, several available web browsers for Android and iOS platforms were compared. The conducted selection was based on freely available data from the StatCounter statistical service and on data from the Google Play and the Apple AppStore online stores. Three online testing tools were used for testing, according to which the browsers were numerically rated. Firstly, the ACID3 test which focuses on valid processing and rendering of web page elements. Secondly, the HTML5test whic...

  5. Updated database and new empirical values for K-shell fluorescence yields

    International Nuclear Information System (INIS)

    The measured K-shell fluorescence yield values that were reported in the literature from 1994 to 2011 were reviewed and presented in a table form (about 341 new measurements). The Weighted-mean values of experimental data were fitted by the analytical function to deduce new empirical K-shell fluorescence yields for a broad range of elements. The results were compared with the other theoretical, experimental and semi-empirical values reported in the literature. Reasonable agreement was typically obtained between our result and other works. - Highlights: ► The updated database relies on the different publications from 1994 till 2011. ► The results were presented for elements from (11Na) to (99Es). ► The experimental data are fitted to deduce the empirical fluorescence yields.

  6. Selectome update: quality control and computational improvements to a database of positive selection.

    Science.gov (United States)

    Moretti, Sébastien; Laurenczy, Balazs; Gharib, Walid H; Castella, Briséïs; Kuzniar, Arnold; Schabauer, Hannes; Studer, Romain A; Valle, Mario; Salamin, Nicolas; Stockinger, Heinz; Robinson-Rechavi, Marc

    2014-01-01

    Selectome (http://selectome.unil.ch/) is a database of positive selection, based on a branch-site likelihood test. This model estimates the number of nonsynonymous substitutions (dN) and synonymous substitutions (dS) to evaluate the variation in selective pressure (dN/dS ratio) over branches and over sites. Since the original release of Selectome, we have benchmarked and implemented a thorough quality control procedure on multiple sequence alignments, aiming to provide minimum false-positive results. We have also improved the computational efficiency of the branch-site test implementation, allowing larger data sets and more frequent updates. Release 6 of Selectome includes all gene trees from Ensembl for Primates and Glires, as well as a large set of vertebrate gene trees. A total of 6810 gene trees have some evidence of positive selection. Finally, the web interface has been improved to be more responsive and to facilitate searches and browsing. PMID:24225318

  7. Selectome update: quality control and computational improvements to a database of positive selection

    Science.gov (United States)

    Moretti, Sébastien; Laurenczy, Balazs; Gharib, Walid H.; Castella, Briséïs; Kuzniar, Arnold; Schabauer, Hannes; Studer, Romain A.; Valle, Mario; Salamin, Nicolas; Stockinger, Heinz; Robinson-Rechavi, Marc

    2014-01-01

    Selectome (http://selectome.unil.ch/) is a database of positive selection, based on a branch-site likelihood test. This model estimates the number of nonsynonymous substitutions (dN) and synonymous substitutions (dS) to evaluate the variation in selective pressure (dN/dS ratio) over branches and over sites. Since the original release of Selectome, we have benchmarked and implemented a thorough quality control procedure on multiple sequence alignments, aiming to provide minimum false-positive results. We have also improved the computational efficiency of the branch-site test implementation, allowing larger data sets and more frequent updates. Release 6 of Selectome includes all gene trees from Ensembl for Primates and Glires, as well as a large set of vertebrate gene trees. A total of 6810 gene trees have some evidence of positive selection. Finally, the web interface has been improved to be more responsive and to facilitate searches and browsing. PMID:24225318

  8. 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.

  9. 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 PGDBj Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods Update History o...Registered plant list, Marker list, QTL list, Plant DB link & Genome analysis methods is opened. Joomla SEF ...t, Marker list, QTL list, Plant DB link & Genome analysis methods | LSDB Archive ... ... link & Genome analysis methods English archive site is opened. 2012/08/08 PGDBj ...f This Database Date Update contents 2014/10/10 PGDBj Registered plant list, Marker list, QTL list, Plant DB

  10. MitoMiner v3.1, an update on the mitochondrial proteomics database.

    Science.gov (United States)

    Smith, Anthony C; Robinson, Alan J

    2016-01-01

    Mitochondrial proteins remain the subject of intense research interest due to their implication in an increasing number of different conditions including mitochondrial and metabolic disease, cancer, and neuromuscular degenerative and age-related disorders. However, the mitochondrial proteome has yet to be accurately and comprehensively defined, despite many studies. To support mitochondrial research, we developed MitoMiner (http://mitominer.mrc-mbu.cam.ac.uk), a freely accessible mitochondrial proteomics database. MitoMiner integrates different types of subcellular localisation evidence with protein information from public resources, and so provides a comprehensive central resource for data on mitochondrial protein localisation. Here we report important updates to the database including the addition of subcellular immunofluorescent staining results from the Human Protein Atlas, computational predictions of mitochondrial targeting sequences, and additional large-scale mass-spectrometry and GFP tagging data sets. This evidence is shared across the 12 species in MitoMiner (now including Schizosaccharomyces pombe) by homology mapping. MitoMiner provides multiple ways of querying the data including simple text searches, predefined queries and custom queries created using the interactive QueryBuilder. For remote programmatic access, API's are available for several programming languages. This combination of data and flexible querying makes MitoMiner a unique platform to investigate mitochondrial proteins, with application in mitochondrial research and prioritising candidate mitochondrial disease genes. PMID:26432830

  11. Molecular mechanisms of cryptorchidism development: update of the database, disease comorbidity, and initiative for standardization of reporting in scientific literature.

    Science.gov (United States)

    Urh, K; Kunej, T

    2016-09-01

    Cryptorchidism is a frequent urogenital abnormality that may be present at birth (congenital form) or develop later in life (acquired form). It represents 2-4% full-term male births. It has a potential effect on health; defects in testes descent usually cause impaired spermatogenesis resulting in reduced fertility and increased rates of testicular neoplasia, and testicular torsion. In our previous study, we developed a cryptorchidism gene database which consists of 217 genomic variations associated with development of cryptorchidism in seven mammalian species. The number of studies and study approaches in this field are increasing; therefore, update of the database was needed. The search of multi-omics data was performed and the updated database includes 280 genomic variations associated with cryptorchidism in seven species. The catalog has been complemented with additional data including: number of participants (patients/controls), race/ethnicity, clinical data (age period at diagnosis), congenital/acquired cryptorchidism, unilateral (left/right)/bilateral cryptorchidism, disease comorbidity, and disease ontology. Collected data revealed that cryptorchidism has been reported to be co-present with 150 comorbid conditions, including several syndromes, reproductive, cardiovascular, ophthalmologic, dermatologic, mental, and bone disorders, deafness, and cancer. However, updating the database is time-consuming because of the heterogeneity of results and methodology in scientific literature. The field lacks a standardized format for reporting associations between genotype and phenotype which would enable faster development of the database, data integration, sharing, and facilitate biomarker development. Therefore, in this study, we updated a database of cryptorchidism genes and suggested a first step toward standardization of the format for reporting results of original as well as review studies which we suggest implementing into the scientific literature that reports

  12. Automation Framework of Browser Based Testing Tool Watir

    OpenAIRE

    Amit Puri

    2012-01-01

    This paper presents the automation framework of Browser based testing tool Watir (web application testing in `Ruby). The main advantage of a framework is the low cost for maintenance. If there is change to any test case then only the test case file needs to be updated and the Driver Script and Start-up script will remain the same. So, there is no need to update the scripts in case of changes to the application. Choosing the right framework helps in maintaining lower costs. There are several f...

  13. Latest updates in global flood modelling: channel bifurcation and global river width database

    Science.gov (United States)

    Yamazaki, D.; Kanae, S.; Hirabayashi, Y.; O'Loughlin, F.; Trigg, M. A.; Bates, P. D.

    2014-12-01

    Global flood modelling is a relatively new framework in earth system studies, and there still exist many rooms for improving model physics. A typical grid size of global models (generally >5 km) is coarser than the scale of the topography of river channels and floodplains, therefore flood dynamics in global flood models is represented by sub-grid parameterization. Here, we introduce two latest updates in flood dynamics parameterization, i.e. channel bifurcation scheme and global river width database. The upstream-downstream relationship of model grids is prescribed (i.e. parameterized) by a river network map, where each grid has been assumed to have only one downstream grid. We abandoned this "only one downstream" assumption, and succeeded to represent channel bifurcation in a global flood model. The new bifurcation scheme was tested in the Mekong River, and showed the importance of channel bifurcation in mega-delta hydrodynamics. Channel cross-sectional shape has been parameterized using an empirical equation of discharge (or drainage area), and it is a major source of uncertainties in global flood modelling. We recently developed a fully-automated algorithm to calculate river width from satellite water mask. By applying this algorithm to SRTM Water Body Data, the Global Width Database for Large Rivers (GWD-LR) was constructed. The difference between the satellite-based width and empirically-estimated width is very large, suggesting the difficulty of river width parameterization by an empirical equation. Improvement in flood dynamics parameterization reduces uncertainties in global flood simulations. This enables advanced validation/calibration of global flood models, such as direct comparison against satellite altimeters. A future strategy for advanced model validation/calibration will be mentioned in the conference presentation.

  14. Updating the French archeomagnetic directional database for the past two millennia

    Science.gov (United States)

    Le Goff, M.; Warmé, N.; Gallet, Y.; Genevey, A.

    2009-04-01

    Research in archeomagnetism began in France during the 1930's with the pioneering work of Emile Thellier. Combining instrumental and methodological developments, together with the patient establishment of a collaboration with archeologists, Thellier's activity led to the construction of the first directional secular variation curve in France spanning the past two millennia. After Thellier's retirement, Ileana Bucur continued this work, enriching the French archeomagnetic database up to more than 200 directional data, among which 120 dated results were used to construct in 1994 a revised version of the French directional secular variation curve, which is still considered as a reference today. Since 1994, the acquisition of archeomagnetic directional data has been continuously pursued at IPGP and the present study aims to update the French archeomagnetic dataset for the past two millennia. We have sampled about 400 burned structures from more than sixty different archeological sites mostly located near Paris, in the Ile-de-France region. Domestic kilns here represent approximately 2/3 of those structures, which were found in ancient agricultural settlements generally dated to the High Middle Ages. More than one hundred structures were dated using archeological constraints, such as the typo-morphology of ceramics, coins or archives, with enough precision and accuracy to be considered for improving the French reference directional secular variation curve over the past two millennia. We will discuss the present status of the French archeomagnetic directional database, which thus contains more than 600 data, 90% of which are defined with an a95 of less than 2°. We will also illustrate its increasingly potential as a dating tool for archeological purposes.

  15. SMPD1 Mutation Update: Database and Comprehensive Analysis of Published and Novel Variants.

    Science.gov (United States)

    Zampieri, Stefania; Filocamo, Mirella; Pianta, Annalisa; Lualdi, Susanna; Gort, Laura; Coll, Maria Jose; Sinnott, Richard; Geberhiwot, Tarekegn; Bembi, Bruno; Dardis, Andrea

    2016-02-01

    Niemann-Pick Types A and B (NPA/B) diseases are autosomal recessive lysosomal storage disorders caused by the deficient activity of acid sphingomyelinase (ASM) because of the mutations in the SMPD1 gene. Here, we provide a comprehensive updated review of already reported and newly identified SMPD1 variants. Among them, 185 have been found in NPA/B patients. Disease-causing variants are equally distributed along the SMPD1 gene; most of them are missense (65.4%) or frameshift (19%) mutations. The most frequently reported mutation worldwide is the p.R610del, clearly associated with an attenuated NP disease type B phenotype. The available information about the impact of 52 SMPD1 variants on ASM mRNA and/or enzymatic activity has been collected and whenever possible, phenotype/genotype correlations were established. In addition, we created a locus-specific database easily accessible at http://www.inpdr.org/genes that catalogs the 417 SMPD1 variants reported to date and provides data on their in silico predicted effects on ASM protein function or mRNA splicing. The information reviewed in this article, providing new insights into the genotype/phenotype correlation, is extremely valuable to facilitate diagnosis and genetic counseling of families affected by NPA/B. PMID:26499107

  16. 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

    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.

  17. Updated correlation of the absorption line blackbody distribution function for H2O based on the HITEMP2010 database

    International Nuclear Information System (INIS)

    The absorption line blackbody distribution function (ALBDF) was developed for use in global methods such as the SLW and FSK models that integrate the radiative transfer equation over the absorption coefficient rather than wavenumber. A widely used method of representing the ALBDF efficiently is a correlation in the form of a hyperbolic tangent function originally proposed by Denison and Webb. This paper reports on the generation of new coefficients to be used in the correlation for H2O using the recently released high temperature database, HITEMP2010. The updated correlation is valid for an expanded temperature range, from 400 to 3000 K, made possible by the new database. The accuracy of the new coefficients is tested and compared against the previous correlations through calculations of total emissivity and the Planck mean absorption coefficient. Solutions of the radiative transfer equation in homogeneous one-dimensional media have been performed with the SLW method using the updated ALBDF, and are compared to rigorous line-by-line calculations. The updated correlation performs very well in these calculations and shows excellent accuracy compared to the line-by-line benchmark predictions. Comparisons made with the previous coefficients show that updating the correlation was necessary in order to obtain accurate calculations. -- Highlights: ► HITEMP2010 was used to update the absorption line blackbody distribution function. ► Hyperbolic tangent form used previously was maintained. ► Temperature ceiling was extended from 2500 K up to 3000 K. ► Calculations using the updated correlation demonstrate its accuracy. ► Comparisons with the previous correlation demonstrate the need for an update

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

    OpenAIRE

    Mathelier, Anthony; Fornes, Oriol; Arenillas, David J.; Chen, Chih-Yu; Denay, Grégoire; Lee, Jessica; Shi, Wenqiang; Shyr, Casper; Tan, Ge; Worsley-Hunt, Rebecca; Zhang, Allen W.; Parcy, François; Lenhard, Boris; Sandelin, Albin; Wasserman, Wyeth W

    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 expanded the JASPAR CORE collection with 494 new TF binding profiles (315 in vertebrates, 11 in nematodes, 3 in insects, 1 in fungi and 164 in plants) and updated 59 profiles (58 in vertebrates and 1 in f...

  19. 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...

  20. Databases

    Digital Repository Service at National Institute of Oceanography (India)

    Kunte, P.D.

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

  1. Updating the 2001 National Land Cover Database Impervious Surface Products to 2006 using Landsat Imagery Change Detection Methods

    Science.gov (United States)

    Xian, G.; Homer, C.

    2010-01-01

    A prototype method was developed to update the U.S. Geological Survey (USGS) National Land Cover Database (NLCD) 2001 to a nominal date of 2006. NLCD 2001 is widely used as a baseline for national land cover and impervious cover conditions. To enable the updating of this database in an optimal manner, methods are designed to be accomplished by individual Landsat scene. Using conservative change thresholds based on land cover classes, areas of change and no-change were segregated from change vectors calculated from normalized Landsat scenes from 2001 and 2006. By sampling from NLCD 2001 impervious surface in unchanged areas, impervious surface predictions were estimated for changed areas within an urban extent defined by a companion land cover classification. Methods were developed and tested for national application across six study sites containing a variety of urban impervious surface. Results show the vast majority of impervious surface change associated with urban development was captured, with overall RMSE from 6.86 to 13.12% for these areas. Changes of urban development density were also evaluated by characterizing the categories of change by percentile for impervious surface. This prototype method provides a relatively low cost, flexible approach to generate updated impervious surface using NLCD 2001 as the baseline. ?? 2010 Elsevier Inc.

  2. 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

  3. 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.

  4. Glucose-6-phosphate dehydrogenase (G6PD) mutations database: review of the "old" and update of the new mutations.

    Science.gov (United States)

    Minucci, Angelo; Moradkhani, Kamran; Hwang, Ming Jing; Zuppi, Cecilia; Giardina, Bruno; Capoluongo, Ettore

    2012-03-15

    In the present paper we have updated the G6PD mutations database, including all the last discovered G6PD genetic variants. We underline that the last database has been published by Vulliamy et al. [1] who analytically reported 140 G6PD mutations: along with Vulliamy's database, there are two main sites, such as http://202.120.189.88/mutdb/ and www.LOVD.nl/MR, where almost all G6PD mutations can be found. Compared to the previous mutation reports, in our paper we have included for each mutation some additional information, such as: the secondary structure and the enzyme 3D position involving by mutation, the creation or abolition of a restriction site (with the enzyme involved) and the conservation score associated with each amino acid position. The mutations reported in the present tab have been divided according to the gene's region involved (coding and non-coding) and mutations affecting the coding region in: single, multiple (at least with two bases involved) and deletion. We underline that for the listed mutations, reported in italic, literature doesn't provide all the biochemical or bio-molecular information or the research data. Finally, for the "old" mutations, we tried to verify features previously reported and, when subsequently modified, we updated the specific information using the latest literature data. PMID:22293322

  5. Exploring the enjoyment of playing browser games.

    Science.gov (United States)

    Klimmt, Christoph; Schmid, Hannah; Orthmann, Julia

    2009-04-01

    Browser games--mostly persistent game worlds that can be used without client software and monetary cost with a Web browser--belong to the understudied digital game types, although they attract large player communities and motivate sustained play. The present work reports findings from an online survey of 8,203 players of a German strategy browser game ("Travian"). Results suggest that multiplayer browser games are enjoyed primarily because of the social relationships involved in game play and the specific time and flexibility characteristics ("easy-in, easy-out"). Competition, in contrast, seems to be less important for browser gamers than for users of other game types. Findings are discussed in terms of video game enjoyment and game addiction. PMID:19260776

  6. Databases

    Directory of Open Access Journals (Sweden)

    Nick Ryan

    2004-01-01

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

  7. Water-level database update for the Death Valley regional groundwater flow system, Nevada and California, 1907-2007

    Science.gov (United States)

    Pavelko, Michael T.

    2010-01-01

    The water-level database for the Death Valley regional groundwater flow system in Nevada and California was updated. The database includes more than 54,000 water levels collected from 1907 to 2007, from more than 1,800 wells. Water levels were assigned a primary flag and multiple secondary flags that describe hydrologic conditions and trends at the time of the measurement and identify pertinent information about the well or water-level measurement. The flags provide a subjective measure of the relative accuracy of the measurements and are used to identify which water levels are appropriate for calculating head observations in a regional transient groundwater flow model. Included in the report appendix are all water-level data and their flags, selected well data, and an interactive spreadsheet for viewing hydrographs and well locations.

  8. Updating the 2001 National Land Cover Database land cover classification to 2006 by using Landsat imagery change detection methods

    Science.gov (United States)

    Xian, G.; Homer, C.; Fry, J.

    2009-01-01

    The recent release of the U.S. Geological Survey (USGS) National Land Cover Database (NLCD) 2001, which represents the nation's land cover status based on a nominal date of 2001, is widely used as a baseline for national land cover conditions. To enable the updating of this land cover information in a consistent and continuous manner, a prototype method was developed to update land cover by an individual Landsat path and row. This method updates NLCD 2001 to a nominal date of 2006 by using both Landsat imagery and data from NLCD 2001 as the baseline. Pairs of Landsat scenes in the same season in 2001 and 2006 were acquired according to satellite paths and rows and normalized to allow calculation of change vectors between the two dates. Conservative thresholds based on Anderson Level I land cover classes were used to segregate the change vectors and determine areas of change and no-change. Once change areas had been identified, land cover classifications at the full NLCD resolution for 2006 areas of change were completed by sampling from NLCD 2001 in unchanged areas. Methods were developed and tested across five Landsat path/row study sites that contain several metropolitan areas including Seattle, Washington; San Diego, California; Sioux Falls, South Dakota; Jackson, Mississippi; and Manchester, New Hampshire. Results from the five study areas show that the vast majority of land cover change was captured and updated with overall land cover classification accuracies of 78.32%, 87.5%, 88.57%, 78.36%, and 83.33% for these areas. The method optimizes mapping efficiency and has the potential to provide users a flexible method to generate updated land cover at national and regional scales by using NLCD 2001 as the baseline. ?? 2009 Elsevier Inc.

  9. RESIS-II: An Updated Version of the Original Reservoir Sedimentation Survey Information System (RESIS) Database

    Science.gov (United States)

    Ackerman, Katherine V.; Mixon, David M.; Sundquist, Eric T.; Stallard, Robert F.; Schwarz, Gregory E.; Stewart, David W.

    2009-01-01

    The Reservoir Sedimentation Survey Information System (RESIS) database, originally compiled by the Soil Conservation Service (now the Natural Resources Conservation Service) in collaboration with the Texas Agricultural Experiment Station, is the most comprehensive compilation of data from reservoir sedimentation surveys throughout the conterminous United States (U.S.). The database is a cumulative historical archive that includes data from as early as 1755 and as late as 1993. The 1,823 reservoirs included in the database range in size from farm ponds to the largest U.S. reservoirs (such as Lake Mead). Results from 6,617 bathymetric surveys are available in the database. This Data Series provides an improved version of the original RESIS database, termed RESIS-II, and a report describing RESIS-II. The RESIS-II relational database is stored in Microsoft Access and includes more precise location coordinates for most of the reservoirs than the original database but excludes information on reservoir ownership. RESIS-II is anticipated to be a template for further improvements in the database.

  10. Full Data of Yeast Interacting Proteins Database (Annotation Updated Version) - Yeast Interacting Proteins Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available he ORF name of Bait, and the systematic name in the SGD (Saccharomyces Genome Database; http://www.yeastgeno...s Bait ORF as the Prey ORF, and the link to the search results (for TogoDB only). Prey ORF The ORF name of Prey, and the systematic

  11. Interaction between web browsers and script engines

    OpenAIRE

    Zhuang, Xiaoyu

    2012-01-01

    Web browser plays an important part of internet experience and JavaScript is the most popular programming language as a client side script to build an active and advance end user experience.  The script engine which executes JavaScript needs to interact with web browser to get access to its DOM elements and other host objects. Browser from host side needs to initialize the script engine and dispatch script source code to the engine side. This thesis studies the interaction between the script ...

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

    Science.gov (United States)

    Mathelier, Anthony; Fornes, Oriol; Arenillas, David J; Chen, Chih-Yu; Denay, Grégoire; Lee, Jessica; Shi, Wenqiang; Shyr, Casper; Tan, Ge; Worsley-Hunt, Rebecca; Zhang, Allen W; Parcy, François; Lenhard, Boris; Sandelin, Albin; Wasserman, Wyeth W

    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 expanded the JASPAR CORE collection with 494 new TF binding profiles (315 in vertebrates, 11 in nematodes, 3 in insects, 1 in fungi and 164 in plants) and updated 59 profiles (58 in vertebrates and 1 in fungi). The introduced profiles represent an 83% expansion and 10% update when compared to the previous release. We updated the structural annotation of the TF DNA binding domains (DBDs) following a published hierarchical structural classification. In addition, we introduced 130 transcription factor flexible models trained on ChIP-seq data for vertebrates, which capture dinucleotide dependencies within TF binding sites. This new JASPAR release is accompanied by a new web tool to infer JASPAR TF binding profiles recognized by a given TF protein sequence. Moreover, we provide the users with a Ruby module complementing the JASPAR API to ease programmatic access and use of the JASPAR collection of profiles. Finally, we provide the JASPAR2016 R/Bioconductor data package with the data of this release. PMID:26531826

  13. Security Survey of Internet Browsers Data Managers

    OpenAIRE

    Catalin Boja

    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.

  14. CRATE: Writing Stories Together with our Browsers

    OpenAIRE

    Nédelec, Brice; Molli, Pascal; Mostefaoui, Achour

    2016-01-01

    Real-time collaborative editors are common tools for distributing work across space, time, and organizations. Unfortunately , mainstream editors such as Google Docs rely on central servers and raise privacy and scalability issues. Crate is a real-time decentralized collaborative editor that runs directly in web browsers thanks to WebRTC. Compared to state-of-the-art, Crate is the first real-time editor that only requires browsers in order to support collaborative editing and to transparently ...

  15. MitoNuc: a database of nuclear genes coding for mitochondrial proteins. Update 2002

    Science.gov (United States)

    Attimonelli, Marcella; Catalano, Domenico; Gissi, Carmela; Grillo, Giorgio; Licciulli, Flavio; Liuni, Sabino; Santamaria, Monica; Pesole, Graziano; Saccone, Cecilia

    2002-01-01

    Mitochondria, besides their central role in energy metabolism, have recently been found to be involved in a number of basic processes of cell life and to contribute to the pathogenesis of many degenerative diseases. All functions of mitochondria depend on the interaction of nuclear and organelle genomes. Mitochondrial genomes have been extensively sequenced and analysed and data have been collected in several specialised databases. In order to collect information on nuclear coded mitochondrial proteins we developed MitoNuc, a database containing detailed information on sequenced nuclear genes coding for mitochondrial proteins in Metazoa. The MitoNuc database can be retrieved through SRS and is available via the web site http://bighost.area.ba.cnr.it/mitochondriome where other mitochondrial databases developed by our group, the complete list of the sequenced mitochondrial genomes, links to other mitochondrial sites and related information, are available. The MitoAln database, related to MitoNuc in the previous release, reporting the multiple alignments of the relevant homologous protein coding regions, is no longer supported in the present release. In order to keep the links among entries in MitoNuc from homologous proteins, a new field in the database has been defined: the cluster identifier, an alpha numeric code used to identify each cluster of homologous proteins. A comment field derived from the corresponding SWISS-PROT entry has been introduced; this reports clinical data related to dysfunction of the protein. The logic scheme of MitoNuc database has been implemented in the ORACLE DBMS. This will allow the end-users to retrieve data through a friendly interface that will be soon implemented. PMID:11752284

  16. 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

  17. The Philippine Rubiaceae genera: updated synopsis in INTKEY databases of the DELTA system

    NARCIS (Netherlands)

    Alejandro, G.D.; Liede, S.

    2003-01-01

    Changes in generic concepts and delimitation resulted in 80 genera (6 of which are cultivated) of Philippine Rubiaceae. Generic descriptions of all genera are coded in DELTA format (Version 2000) and translated by the directive CONFOR into INTKEY database for interactive identification and informati

  18. Effective Generation and Update of a Building Map Database Through Automatic Building Change Detection from LiDAR Point Cloud Data

    Directory of Open Access Journals (Sweden)

    Mohammad Awrangjeb

    2015-10-01

    Full Text Available Periodic building change detection is important for many applications, including disaster management. Building map databases need to be updated based on detected changes so as to ensure their currency and usefulness. This paper first presents a graphical user interface (GUI developed to support the creation of a building database from building footprints automatically extracted from LiDAR (light detection and ranging point cloud data. An automatic building change detection technique by which buildings are automatically extracted from newly-available LiDAR point cloud data and compared to those within an existing building database is then presented. Buildings identified as totally new or demolished are directly added to the change detection output. However, for part-building demolition or extension, a connected component analysis algorithm is applied, and for each connected building component, the area, width and height are estimated in order to ascertain if it can be considered as a demolished or new building-part. Using the developed GUI, a user can quickly examine each suggested change and indicate his/her decision to update the database, with a minimum number of mouse clicks. In experimental tests, the proposed change detection technique was found to produce almost no omission errors, and when compared to the number of reference building corners, it reduced the human interaction to 14% for initial building map generation and to 3% for map updating. Thus, the proposed approach can be exploited for enhanced automated building information updating within a topographic database.

  19. NIST Database Work on Spectra of Light Elements and Brief Update for Tungsten

    International Nuclear Information System (INIS)

    Work at NIST on the spectra of light atoms is concentrated mainly on critical compilations of papers that have appeared in the literature and dissemination of the data through online databases. We are currently completing work on transition probabilities for F4+-F7+ and Ne5+-Ne8+. We have also carried out theoretical calculations to interpret intensities of Balmer alpha lines of atomic hydrogen split by motional Stark effect. Some of our recent papers include: 1. Transition probability measurements for some strong and weak lines of N I, J. M. Bridges, and W. L. Wiese, Phys. Rev. A 82, 024502 (2010). 2. Energies and E1, M1, E2, M2 transitions rates for states of the 2s22p, 2s2p2, and 2p3 configurations in boron-like ions between N III and Zn XXVI, P. Rynkun, P. Jonsson, G. Gaigalas, and C. Froese Fischer, At. Data Nucl. Data Tables 98, 481 (2012). 3. Non-Statistical Population Distributions for Hydrogen Beams in Fusion Plasmas, O. Marchuk, Yu. Ralchenko, and D. R. Schultz, Plasma Phys. Contr. Fusion 54, 095010 (2012). Our online databases are found on the NIST Physical Measurement Laboratory website. http://www.nist.gov/pml/ The current version of our Atomic Spectra Database (ASD) contains data for more than 194,000 transitions in about 1000 spectra. Online tools include production of Grotrian diagrams and Saha equilibrium plots. Our bibliographic databases are kept current on an approximately biweekly basis. A search for papers on light elements of fusion interest yields references for about 45 recent papers. A new database within ASD provides ionization energies for all atoms and ions. Almost every value has an estimated uncertainty. This database can be queried by specifying either element and ion stage or by isoelectronic sequence. The NIST website also provides for online collisional-radiative modeling with the FLYCHK code and the plasma population kinetics database from the most recent non-LTE calculation workshop NLTE4. Recent spectroscopic work on tungsten

  20. Phospho.ELM: a database of phosphorylation sites--update 2011

    DEFF Research Database (Denmark)

    Dinkel, Holger; Chica, Claudia; Via, Allegra;

    2011-01-01

    The Phospho.ELM resource (http://phospho.elm.eu.org) is a relational database designed to store in vivo and in vitro phosphorylation data extracted from the scientific literature and phosphoproteomic analyses. The resource has been actively developed for more than 7 years and currently comprises 42......,574 serine, threonine and tyrosine non-redundant phosphorylation sites. Several new features have been implemented, such as structural disorder/order and accessibility information and a conservation score. Additionally, the conservation of the phosphosites can now be visualized directly on the multiple...... sequence alignment used for the score calculation. Finally, special emphasis has been put on linking to external resources such as interaction networks and other databases....

  1. Toxic Substances Control Act test submissions database (TSCATS) - comprehensive update. Data file

    International Nuclear Information System (INIS)

    The Toxic Substances Control Act Test Submissions Database (TSCATS) was developed to make unpublished test data available to the public. The test data is submitted to the U.S. Environmental Protection Agency by industry under the Toxic Substances Control Act. Test is broadly defined to include case reports, episodic incidents, such as spills, and formal test study presentations. The database allows searching of test submissions according to specific chemical identity or type of study when used with an appropriate search retrieval software program. Studies are indexed under three broad subject areas: health effects, environmental effects and environmental fate. Additional controlled vocabulary terms are assigned which describe the experimental protocol and test observations. Records identify reference information needed to locate the source document, as well as the submitting organization and reason for submission of the test data

  2. 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. PMID:21907832

  3. The Occupational Wages around the World (OWW) Database : Update for 1983-2008

    OpenAIRE

    Remco H. Oostendorp

    2012-01-01

    This document describes the standardization procedure for the 1983–2008 International Labour Office (ILO) October Inquiry data. Earlier standardization procedures were those applied to the 1983–2003 data and the 1983–1998 data. The current standardization procedure for the 1983–2008 ILO October Inquiry data expands the earlier databases by including the most recent data available on the ILO website as well as data for 1983–1984 that are only available in hardcopy format. The wages are standar...

  4. JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

    OpenAIRE

    Mathelier, Anthony; Zhao, Xiaobei; Zhang, Allen W.; Parcy, François; Worsley-Hunt, Rebecca; Arenillas, David J.; Buchman, Sorana; Chen, Chih-Yu; Chou, Alice; Ienasescu, Hans; Lim, Jonathan; Shyr, Casper; Tan, Ge; Zhou, Michelle; Lenhard, Boris

    2013-01-01

    JASPAR (http://jaspar.genereg.net) is the largest open-access database of matrix-based nucleotide profiles describing the binding preference of transcription factors from multiple species. The fifth major release greatly expands the heart of JASPAR—the JASPAR CORE subcollection, which contains curated, non-redundant profiles—with 135 new curated profiles (74 in vertebrates, 8 in Drosophila melanogaster, 10 in Caenorhabditis elegans and 43 in Arabidopsis thaliana; a 30% increase in total) and ...

  5. NPInter v2.0: an updated database of ncRNA interactions

    OpenAIRE

    Yuan, Jiao; Wei WU; Xie, Chaoyong; Zhao, Guoguang; Zhao, Yi; Chen, Runsheng

    2013-01-01

    NPInter (http://www.bioinfo.org/NPInter) is a database that integrates experimentally verified functional interactions between noncoding RNAs (excluding tRNAs and rRNAs) and other biomolecules (proteins, RNAs and genomic DNAs). Extensive studies on ncRNA interactions have shown that ncRNAs could act as part of enzymatic or structural complexes, gene regulators or other functional elements. With the development of high-throughput biotechnology, such as cross-linking immunoprecipitation and hig...

  6. The Philippine Rubiaceae genera: updated synopsis in INTKEY databases of the DELTA system

    OpenAIRE

    Alejandro, G.D.; Liede, S.

    2003-01-01

    Changes in generic concepts and delimitation resulted in 80 genera (6 of which are cultivated) of Philippine Rubiaceae. Generic descriptions of all genera are coded in DELTA format (Version 2000) and translated by the directive CONFOR into INTKEY database for interactive identification and information retrieval. The descriptions incorporate mostly compiled data of Philippine Rubiaceae species and observations on over 130 characters. Recently accepted classification (subfamily, tribes, and sub...

  7. Selectome update: quality control and computational improvements to a database of positive selection.

    OpenAIRE

    Moretti S; Laurenczy B.; Gharib W.H.; Castella B; Kuzniar A.; Schabauer H.; Studer R.A.; Valle M.; Salamin N.; Stockinger H.; Robinson-Rechavi M.

    2014-01-01

    Selectome (http://selectome.unil.ch/) is a database of positive selection, based on a branch-site likelihood test. This model estimates the number of nonsynonymous substitutions (dN) and synonymous substitutions (dS) to evaluate the variation in selective pressure (dN/dS ratio) over branches and over sites. Since the original release of Selectome, we have benchmarked and implemented a thorough quality control procedure on multiple sequence alignments, aiming to provide minimum false-positive ...

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

    OpenAIRE

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

    2011-01-01

    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 dru...

  9. Updated folate data in the Dutch Food Composition Database and implications for intake estimates

    OpenAIRE

    Westenbrink, Susanne; Jansen-van der Vliet, Martine; van Rossum, Caroline

    2012-01-01

    Background and objective: Nutrient values are influenced by the analytical method used. Food folate measured by high performance liquid chromatography (HPLC) or by microbiological assay (MA) yield different results, with in general higher results from MA than from HPLC. This leads to the question of how to deal with different analytical methods in compiling standardised and internationally comparable food composition databases? A recent inventory on folate in European food composition databas...

  10. 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. PMID:27492669

  11. 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. PMID:26832193

  12. Update to the Ground-Water Withdrawals Database for the Death Valley REgional Ground-Water Flow System, Nevada and California, 1913-2003

    Energy Technology Data Exchange (ETDEWEB)

    Michael T. Moreo; and Leigh Justet

    2008-07-02

    Ground-water withdrawal estimates from 1913 through 2003 for the Death Valley regional ground-water flow system are compiled in an electronic database to support a regional, three-dimensional, transient ground-water flow model. This database updates a previously published database that compiled estimates of ground-water withdrawals for 1913–1998. The same methodology is used to construct each database. Primary differences between the 2 databases are an additional 5 years of ground-water withdrawal data, well locations in the updated database are restricted to Death Valley regional ground-water flow system model boundary, and application rates are from 0 to 1.5 feet per year lower than original estimates. The lower application rates result from revised estimates of crop consumptive use, which are based on updated estimates of potential evapotranspiration. In 2003, about 55,700 acre-feet of ground water was pumped in the DVRFS, of which 69 percent was used for irrigation, 13 percent for domestic, and 18 percent for public supply, commercial, and mining activities.

  13. Update to the Ground-Water Withdrawals Database for the Death Valley Regional Ground-Water Flow System, Nevada and California, 1913-2003

    Science.gov (United States)

    Moreo, Michael T.; Justet, Leigh

    2008-01-01

    Ground-water withdrawal estimates from 1913 through 2003 for the Death Valley regional ground-water flow system are compiled in an electronic database to support a regional, three-dimensional, transient ground-water flow model. This database updates a previously published database that compiled estimates of ground-water withdrawals for 1913-1998. The same methodology is used to construct each database. Primary differences between the 2 databases are an additional 5 years of ground-water withdrawal data, well locations in the updated database are restricted to Death Valley regional ground-water flow system model boundary, and application rates are from 0 to 1.5 feet per year lower than original estimates. The lower application rates result from revised estimates of crop consumptive use, which are based on updated estimates of potential evapotranspiration. In 2003, about 55,700 acre-feet of ground water was pumped in the DVRFS, of which 69 percent was used for irrigation, 13 percent for domestic, and 18 percent for public supply, commercial, and mining activities.

  14. Controlling EPICS from a web browser

    International Nuclear Information System (INIS)

    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

  15. JBrowse: a next-generation genome browser.

    Science.gov (United States)

    Skinner, Mitchell E; Uzilov, Andrew V; Stein, Lincoln D; Mungall, Christopher J; Holmes, Ian H

    2009-09-01

    We describe an open source, portable, JavaScript-based genome browser, JBrowse, that can be used to navigate genome annotations over the web. JBrowse helps preserve the user's sense of location by avoiding discontinuous transitions, instead offering smoothly animated panning, zooming, navigation, and track selection. Unlike most existing genome browsers, where the genome is rendered into images on the webserver and the role of the client is restricted to displaying those images, JBrowse distributes work between the server and client and therefore uses significantly less server overhead than previous genome browsers. We report benchmark results empirically comparing server- and client-side rendering strategies, review the architecture and design considerations of JBrowse, and describe a simple wiki plug-in that allows users to upload and share annotation tracks. PMID:19570905

  16. NIST Database Work on Spectra of Light Elements and Brief Update for Tungsten

    International Nuclear Information System (INIS)

    Work at NIST on the spectra of light atoms is concentrated mainly on critical compilations of papers that have appeared in the literature and dissemination of the data through online databases. Examples of our compilations include: 1. 'Accurate atomic transition probabilities for H, He, and Li,' W. Wiese and J. Fuhr, J. Phys. Chem. Ref. Data 38, 565 (2009). 2. 'A Critical Compilation of Experimental Data on Spectral Lines and Energy Levels of H, D, and T,' A. Kramida, At. Data Nucl. Data Tables 96, 586 (2010). 3. 'Tables of Atomic Transition Probabilities for Be and B,' J. Fuhr and W. Wiese, J. Phys. Chem. Ref. Data 39, 013101 (2010). 4. 'Energy Levels and Wavelengths for Ar II - Ar XVIII,' E. B. Saloman, J. Phys. Chem. Ref. Data 39, 033101 (2010). Current work concerns transition probabilities for F and Ne. Because of advances in the theoretical calculations we are able to compile many more lines with accurately calculated values. Our online databases are found on the NIST Physical Measurement Laboratory website. http://www.nist.gov/pml/ The current version of our Atomic Spectra Database contains data for 950 spectra and over 180,000 transition wavelengths. Online tools include production of Saha equilibrium plots of spectra (example to lower right for Fe XVII-XX) and Grotrian diagrams. Our bibliographic databases are kept current on an approximately biweekly basis. A search for papers on light elements of fusion interest yields references for about 50 recent papers. New observations for tungsten with the NIST EBIT have produced data for magnetic dipole transitions within the 3dn ground configurations of W47+-W55+. These normally forbidden lines appear at electron beam energies of 4.5-7.0 keV. Since the appearance of these lines is sensitive to the electron density, their intensities serve as indicators of conditions in a tokamak plasma. Similar data have been obtained for isoelectronic ions of Hf, Ta, and Au. Spectra of W at 5250 eV are compared with collisional

  17. 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.

  18. Browser Feature Usage on the Modern Web

    OpenAIRE

    Snyder, Peter; Ansari, Lara; Taylor, Cynthia; Kanich, Chris

    2016-01-01

    Modern web browsers are incredibly complex, with millions of lines of code and over one thousand JavaScript functions and properties available to website authors. This work investigates how these browser features are used on the modern, open web. We find that JavaScript features differ wildly in popularity, with over 50% of provided features never used in the Alexa 10k. We also look at how popular ad and tracking blockers change the distribution of features used by sites, and identify a set o...

  19. Update on Genomic Databases and Resources at the National Center for Biotechnology Information.

    Science.gov (United States)

    Tatusova, Tatiana

    2016-01-01

    The National Center for Biotechnology Information (NCBI), as a primary public repository of genomic sequence data, collects and maintains enormous amounts of heterogeneous data. Data for genomes, genes, gene expressions, gene variation, gene families, proteins, and protein domains are integrated with the analytical, search, and retrieval resources through the NCBI website, text-based search and retrieval system, provides a fast and easy way to navigate across diverse biological databases.Comparative genome analysis tools lead to further understanding of evolution processes quickening the pace of discovery. Recent technological innovations have ignited an explosion in genome sequencing that has fundamentally changed our understanding of the biology of living organisms. This huge increase in DNA sequence data presents new challenges for the information management system and the visualization tools. New strategies have been designed to bring an order to this genome sequence shockwave and improve the usability of associated data. PMID:27115625

  20. Analysis of 17 STR data on 5362 southern Portuguese individuals-an update on reference database.

    Science.gov (United States)

    Cabezas Silva, Raquel; Ribeiro, Teresa; Lucas, Isabel; Porto, Maria João; Costa Santos, Jorge; Dario, Paulo

    2016-03-01

    The main objective of this work consisted of the updating of allele frequencies and other relevant forensic parameters for the 17 autosomal STR loci provided by the combination of the two types of kits used routinely in our laboratory casework: AmpF/STR Identifiler(®) and the Powerplex(®) 16 Systems. This aim was of significant importance, given that the last study on these kits within the southern Portuguese population dates back to 2006, and, as a consequence, it was necessary to correct the deviation caused by population evolution over the last ten years so that they might be better applied to our forensic casework. For this reason genetic data from 5362 unrelated Caucasian Portuguese individuals from the south of Portugal who were involved in paternity testing casework from 2005 to 2014 was used. Of all the markers, TPOX proved to be the least polymorphic, and Penta E the most. Secondly, this up-to-date southern Portuguese population was compared not only with the northern and central Portuguese populations, but also with that of southern Portugal in 2006, along with populations from Spain, Italy, Greece, Romania, Morocco, Angola and Korea in order to infer information about the relatedness of these respective populations, and the variation of the southern Portuguese population over time. PMID:26651434

  1. 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.

  2. Audio-visual classification video browser

    OpenAIRE

    Scott, David; Zhang, ZhenXing; Albatal, Rami; McGuinness, Kevin; Acar, Esra; Hopfgartner, Frank; Gurrin, Cathal; O'Connor, Noel; Smeaton, Alan

    2014-01-01

    This paper presents our third participation in the Video Browser Showdown. Building on the experience that we gained while participating in this event, we compete in the 2014 showdown with a more advanced browsing system based on incorporating several audio- visual retrieval techniques. This paper provides a short overview of the features and functionality of our new system.

  3. 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. PMID:23748955

  4. 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

  5. The Society of Thoracic Surgeons Congenital Heart Surgery Database: 2016 Update on Outcomes and Quality.

    Science.gov (United States)

    Jacobs, Jeffrey P; Mayer, John E; Mavroudis, Constantine; O'Brien, Sean M; Austin, Erle H; Pasquali, Sara K; Hill, Kevin D; He, Xia; Overman, David M; St Louis, James D; Karamlou, Tara; Pizarro, Christian; Hirsch-Romano, Jennifer C; McDonald, Donna; Han, Jane M; Dokholyan, Rachel S; Tchervenkov, Christo I; Lacour-Gayet, Francois; Backer, Carl L; Fraser, Charles D; Tweddell, James S; Elliott, Martin J; Walters, Hal; Jonas, Richard A; Prager, Richard L; Shahian, David M; Jacobs, Marshall L

    2016-03-01

    The Society of Thoracic Surgeons Congenital Heart Surgery Database is the largest congenital and pediatric cardiac surgical clinical data registry in the world. It is the platform for all activities of The Society of Thoracic Surgeons related to the analysis of outcomes and the improvement of quality in this subspecialty. This article summarizes current aggregate national outcomes in congenital and pediatric cardiac surgery and reviews related activities in the areas of quality measurement, performance improvement, and transparency. The reported data about aggregate national outcomes are exemplified by an analysis of 10 benchmark operations performed from January 2011 to December 2014 and documenting overall discharge mortality (interquartile range among programs with more than 9 cases): off-bypass coarctation, 1.0% (0.0% to 0.9%); ventricular septal defect repair, 0.7% (0.0% to 1.1%); tetralogy of Fallot repair, 1.0% (0.0% to 1.7%); complete atrioventricular canal repair, 3.2% (0.0% to 6.5%); arterial switch operation, 2.7% (0.0% to 5.6%); arterial switch operation plus ventricular septal defect, 5.3% (0.0% to 6.7%); Glenn/hemiFontan, 2.1% (0.0% to 3.8%); Fontan operation, 1.4% (0.0% to 2.4%); truncus arteriosus repair, 9.6% (0.0 % to 11.8%); and Norwood procedure, 15.6% (10.0% to 21.4%). PMID:26897186

  6. CO2 line-mixing database and software update and its tests in the 2.1 μm and 4.3 μm regions

    International Nuclear Information System (INIS)

    An update of the former version of the database and software for the calculation of CO2–air absorption coefficients taking line-mixing into account [Lamouroux et al. J Quant Spectrosc Radiat Transf 2010;111:2321] is described. In this new edition, the data sets were constructed using parameters from the 2012 version of the HITRAN database and recent measurements of line-shape parameters. Among other improvements, speed-dependent profiles can now be used if line-mixing is treated within the first order approximation. This new package is tested using laboratory spectra measured in the 2.1 μm and 4.3 μm spectral regions for various pressures, temperatures and CO2 concentration conditions. Despite improvements at 4.3 μm at room temperature, the conclusions on the quality of this update are more ambiguous at low temperature and in the 2.1 μm region. Further tests using laboratory and atmospheric spectra are thus required for the evaluation of the performances of this updated package. - Highlights: • High resolution infrared spectroscopy. • CO2 in air. • Updated tools. • Line mixing database and software

  7. 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...

  8. Geolocation Events Based Auto Theme Changer for Browsers

    OpenAIRE

    Vinay Gentyala; Pranav Nerurkar; Nazneen Ansari

    2013-01-01

    People around the world frequently use browser for accessing internet through the World Wide Web. Web browsers are the only source through which useful information can be extracted. In this paper we propose Geolocation events based auto theme changer for browsers as browsers are the applications generally used by masses to access the Internet. In the world of events and lively festivals people have hard time remembering each and every historic event that occurred in past. Honorable mentioning...

  9. 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

    under normal running conditions and (ii) low-abundant proteins that can only be detected after prolonged gel exposure. Annotation categories updated in this version include "protein name", "antibody against protein", "cellular localization", and "microsequenced proteins". New entries include "human...... autoantigens" and "cDNAs". For convenience we have included an alphabetical list of all known proteins recorded in this database. In the long run, the main goal of this database is to link protein and DNA sequencing and mapping information (Human Genome Program) and to provide an integrated picture of the...

  10. Aladin Lite: Lightweight sky atlas for browsers

    Science.gov (United States)

    Boch, Thomas

    2014-02-01

    Aladin Lite is a lightweight version of the Aladin tool, running in the browser and geared towards simple visualization of a sky region. It allows visualization of image surveys (JPEG multi-resolution HEALPix all-sky surveys) and permits superimposing tabular (VOTable) and footprints (STC-S) data. Aladin Lite is powered by HTML5 canvas technology and is easily embeddable on any web page and can also be controlled through a Javacript API.

  11. The Human Genome Browser at UCSC

    OpenAIRE

    Kent, W James; Sugnet, Charles W.; Furey, Terrence S.; Roskin, Krishna M; Pringle, Tom H.; Zahler, Alan M.; Haussler, and David

    2002-01-01

    As vertebrate genome sequences near completion and research refocuses to their analysis, the issue of effective genome annotation display becomes critical. A mature web tool for rapid and reliable display of any requested portion of the genome at any scale, together with several dozen aligned annotation tracks, is provided at http://genome.ucsc.edu. This browser displays assembly contigs and gaps, mRNA and expressed sequence tag alignments, multiple gene predictions, cross-species homologies,...

  12. Brassica database (BRAD) version 2.0: integrating and mining Brassicaceae species genomic resources.

    Science.gov (United States)

    Wang, Xiaobo; Wu, Jian; Liang, Jianli; Cheng, Feng; Wang, Xiaowu

    2015-01-01

    The Brassica database (BRAD) was built initially to assist users apply Brassica rapa and Arabidopsis thaliana genomic data efficiently to their research. However, many Brassicaceae genomes have been sequenced and released after its construction. These genomes are rich resources for comparative genomics, gene annotation and functional evolutionary studies of Brassica crops. Therefore, we have updated BRAD to version 2.0 (V2.0). In BRAD V2.0, 11 more Brassicaceae genomes have been integrated into the database, namely those of Arabidopsis lyrata, Aethionema arabicum, Brassica oleracea, Brassica napus, Camelina sativa, Capsella rubella, Leavenworthia alabamica, Sisymbrium irio and three extremophiles Schrenkiella parvula, Thellungiella halophila and Thellungiella salsuginea. BRAD V2.0 provides plots of syntenic genomic fragments between pairs of Brassicaceae species, from the level of chromosomes to genomic blocks. The Generic Synteny Browser (GBrowse_syn), a module of the Genome Browser (GBrowse), is used to show syntenic relationships between multiple genomes. Search functions for retrieving syntenic and non-syntenic orthologs, as well as their annotation and sequences are also provided. Furthermore, genome and annotation information have been imported into GBrowse so that all functional elements can be visualized in one frame. We plan to continually update BRAD by integrating more Brassicaceae genomes into the database. Database URL: http://brassicadb.org/brad/. PMID:26589635

  13. Taking advantage of HTML5 browsers to realize the concepts of session state and workflow sharing in web-tool applications

    Science.gov (United States)

    Suftin, I.; Read, J. S.; Walker, J.

    2013-12-01

    Scientists prefer not having to be tied down to a specific machine or operating system in order to analyze local and remote data sets or publish work. Increasingly, analysis has been migrating to decentralized web services and data sets, using web clients to provide the analysis interface. While simplifying workflow access, analysis, and publishing of data, the move does bring with it its own unique set of issues. Web clients used for analysis typically offer workflows geared towards a single user, with steps and results that are often difficult to recreate and share with others. Furthermore, workflow results often may not be easily used as input for further analysis. Older browsers further complicate things by having no way to maintain larger chunks of information, often offloading the job of storage to the back-end server or trying to squeeze it into a cookie. It has been difficult to provide a concept of "session storage" or "workflow sharing" without a complex orchestration of the back-end for storage depending on either a centralized file system or database. With the advent of HTML5, browsers gained the ability to store more information through the use of the Web Storage API (a browser-cookie holds a maximum of 4 kilobytes). Web Storage gives us the ability to store megabytes of arbitrary data in-browser either with an expiration date or just for a session. This allows scientists to create, update, persist and share their workflow without depending on the backend to store session information, providing the flexibility for new web-based workflows to emerge. In the DSASWeb portal ( http://cida.usgs.gov/DSASweb/ ), using these techniques, the representation of every step in the analyst's workflow is stored as plain-text serialized JSON, which we can generate as a text file and provide to the analyst as an upload. This file may then be shared with others and loaded back into the application, restoring the application to the state it was in when the session file

  14. 基于浏览器/服务器架构的前列腺癌数据库的构建和临床应用%Construction and clinical application of prostate cancer database (PC-Follow) based on browser/server schema

    Institute of Scientific and Technical Information of China (English)

    高旭; 王海峰; 王燕; 许传亮; 孙颖浩

    2015-01-01

    Objective To summarize the construction,upgrading process and clinical application of prostate cancer database (PC-Follow).Methods From September 2008 to December 2014,we designed two versions of off-line PC-Follow clinical databases based on Microsoft Access to support clinical follow-up and research in prostate cancer patients.Then,in order to achieve unified management of clinical data import and multi-center clinical research,we further upgraded PC-Follow to a browser/server (B/S) schema based web database.After upgrade,a simulated multi-center operation pattern was adopted to transfer all existed data-We then attempted to linkage our database with the hospital information system (HIS) and had eventually undertaken reality and stress testing on 3,124 cases'data migration in the hospital.The nationwide software testing and personnel training was conducted in 12 major medical centers.Results Twice of upgrade and alteration of schema of PC-Follow preserved the original user interface.Multiple functions,including data import,follow-up,research support,were obviously enhanced.Notably,the perfection in multi-user and hierarchical access control meet the future needs for multi-center clinical research.Via the import tool for PC-follow V3.0,we successfully migrated all data from the original one.After linking our database with the HIS software by one-way transmission protocol,the safety data extracting could be achieved.Specified administrators were appointed to process and analyze PC-Follow data in bulk,and data were voluntarily shared between attending centers,and showed stable performance on the 3,124 patients in our database.Feedback from nationwide multicenter training and testing indicated that our database was easy,readily accessible,with functionally stable modules,accurate website displays,and ideal response time.Conclusions The online PC-Follow database with hierarchical access provides support for multi-center clinical research in prostate cancer.The off

  15. 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

    expanded the JASPAR CORE collection with 494 new TF binding profiles (315 in vertebrates, 11 in nematodes, 3 in insects, 1 in fungi and 164 in plants) and updated 59 profiles (58 in vertebrates and 1 in fungi). The introduced profiles represent an 83% expansion and 10% update when compared to the previous...

  16. Data Update and Model Revision for Soil Profile Analytical Database of Europe of Measured Parameters (SPADE/M2)

    OpenAIRE

    Hiederer, Roland

    2010-01-01

    The Soil Profile Analytical Database of Europe of Measured parameters (SPADE/M) is part of the distribution package of the Soil Geographic Database of Eurasia (SGDBE). Typical combinations of profile parameters and morphological characteristics of the sample site were intended to support the definition of generalized rules for estimating pedological and hydrological properties of the pedo-transfer rule (PTR) database of the SGDBE. In 2005 the data of the SGDBE were transferred to a common dat...

  17. Hymenoptera Genome Database: integrating genome annotations in HymenopteraMine.

    Science.gov (United States)

    Elsik, Christine G; Tayal, Aditi; Diesh, Colin M; Unni, Deepak R; Emery, Marianne L; Nguyen, Hung N; Hagen, Darren E

    2016-01-01

    We report an update of the Hymenoptera Genome Database (HGD) (http://HymenopteraGenome.org), a model organism database for insect species of the order Hymenoptera (ants, bees and wasps). HGD maintains genomic data for 9 bee species, 10 ant species and 1 wasp, including the versions of genome and annotation data sets published by the genome sequencing consortiums and those provided by NCBI. A new data-mining warehouse, HymenopteraMine, based on the InterMine data warehousing system, integrates the genome data with data from external sources and facilitates cross-species analyses based on orthology. New genome browsers and annotation tools based on JBrowse/WebApollo provide easy genome navigation, and viewing of high throughput sequence data sets and can be used for collaborative genome annotation. All of the genomes and annotation data sets are combined into a single BLAST server that allows users to select and combine sequence data sets to search. PMID:26578564

  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. 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.

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

    International Nuclear Information System (INIS)

    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-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

  1. PASS2 database for the structure-based sequence alignment of distantly related SCOP domain superfamilies: update to version 5 and added features.

    Science.gov (United States)

    Gandhimathi, Arumugam; Ghosh, Pritha; Hariharaputran, Sridhar; Mathew, Oommen K; Sowdhamini, R

    2016-01-01

    Structure-based sequence alignment is an essential step in assessing and analysing the relationship of distantly related proteins. PASS2 is a database that records such alignments for protein domain superfamilies and has been constantly updated periodically. This update of the PASS2 version, named as PASS2.5, directly corresponds to the SCOPe 2.04 release. All SCOPe structural domains that share less than 40% sequence identity, as defined by the ASTRAL compendium of protein structures, are included. The current version includes 1977 superfamilies and has been assembled utilizing the structure-based sequence alignment protocol. Such an alignment is obtained initially through MATT, followed by a refinement through the COMPARER program. The JOY program has been used for structural annotations of such alignments. In this update, we have automated the protocol and focused on inclusion of new features such as mapping of GO terms, absolutely conserved residues among the domains in a superfamily and inclusion of PDBs, that are absent in SCOPe 2.04, using the HMM profiles from the alignments of the superfamily members and are provided as a separate list. We have also implemented a more user-friendly manner of data presentation and options for downloading more features. PASS2.5 version is available at http://caps.ncbs.res.in/pass2/. PMID:26553811

  2. 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.

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

    OpenAIRE

    Bryne, Jan Christian; Valen, Eivind; Tang, Man-Hung Eric; Marstrand, Troels; Winther, Ole; da Piedade, Isabelle; Krogh, Anders; Lenhard, Boris; Sandelin, Albin

    2007-01-01

    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 database—the JASPAR CORE sub-database—has increased by 12% in size, and three new specialized sub-databases have been added. New functions include clustering of matrix models by similarity, generat...

  4. Geant4 application in a Web browser

    International Nuclear Information System (INIS)

    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.

  5. 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. PMID:25628562

  6. 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.

  7. An update of miRNASNP database for better SNP selection by GWAS data, miRNA expression and online tools

    Science.gov (United States)

    Gong, Jing; Liu, Chunjie; Liu, Wei; Wu, Yuliang; Ma, Zhaowu; Chen, Hu; Guo, An-Yuan

    2015-01-01

    MicroRNAs (miRNAs) are key regulators of gene expression involved in a broad range of biological processes. MiRNASNP aims to provide single nucleotide polymorphisms (SNPs) in miRNAs and genes that may impact miRNA biogenesis and/or miRNA target binding. Advanced miRNA research provided abundant data about miRNA expression, validated targets and related phenotypic variants. In miRNASNP v2.0, we have updated our previous database with several new data and features, including: (i) expression level and expression correlation of miRNAs and target genes in different tissues, (ii) linking SNPs to the results of genome-wide association studies, (iii) integrating experimentally validated miRNA:mRNA interactions, (iv) adding multiple filters to prioritize functional SNPs. In addition, as a supplement of the database, we have set up three flexible online tools to analyse the influence of novel variants on miRNA:mRNA binding. A new nice web interface was designed for miRNASNP v2.0 allowing users to browse, search and download. We aim to maintain the miRNASNP as a solid resource for function, genetics and disease studies of miRNA-related SNPs. Database URL: http://bioinfo.life. hust.edu.cn/miRNASNP2/. PMID:25877638

  8. Database Description - 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... Database Description General information of database Database name Trypanosomes Database...rmation and Systems Yata 1111, Mishima, Shizuoka 411-8540, JAPAN E mail: Database... classification Protein sequence databases Organism Taxonomy Name: Trypanosoma Taxonomy ID: 5690 Taxonomy Na...me: Homo sapiens Taxonomy ID: 9606 Database description The Trypanosomes database is a database providing th

  9. 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...

  10. 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

    databasethe JASPAR CORE sub-databasehas increased by 12 in size, and three new specialized sub-databases have been added. New functions include clustering of matrix models by similarity, generation of random matrices by sampling from selected sets of existing models and a language-independent Web Service...... applications programming interface for matrix retrieval. JASPAR is available at http://jaspar.genereg.net....

  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.; Marstrand, T.; Winther, Ole; da Piedade, I.; Krogh, A.; Lenhard, B.; Sandelin, A.

    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. A Classification Framework for Web Browser Cross-Context Communication

    CERN Document Server

    Zuzak, Ivan; Budiselic, Ivan

    2011-01-01

    Demand for more advanced Web applications is the driving force behind Web browser evolution. Recent requirements for Rich Internet Applications, such as mashing-up data and background processing, are emphasizing the need for building and executing Web applications as a coordination of browser execution contexts. Since development of such Web applications depends on cross-context communication, many browser primitives and client-side frameworks have been developed to support this communication. In this paper we present a systematization of cross-context communication systems for Web browsers. Based on an analysis of previous research, requirements for modern Web applications and existing systems, we extract a framework for classifying cross-context communica-tion systems. Using the framework, we evaluate the current ecosystem of cross-context communication and outline directions for future Web research and engineering.

  13. 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

  14. Mitigating browser fingerprint tracking: multi-level reconfiguration and diversification

    OpenAIRE

    Laperdrix, Pierre; Rudametkin, Walter; Baudry, Benoit

    2015-01-01

    International audience The diversity of software components (e.g., browsers, plugins, fonts) is a wonderful opportunity for users to customize their platforms. Yet, massive customization creates a privacy issue: browsers are slightly different from one another, allowing third parties to collect unique and stable fingerprints to track users. Although software diversity appears to be the source of this privacy issue, we claim that this same diversity, combined with automatic reconfiguration,...

  15. PLMItRNA, a database for tRNAs and tRNA genes in plant mitochondria: enlargement and updating

    Science.gov (United States)

    Volpetti, Vito; Gallerani, Raffaele; De Benedetto, Caterina; Liuni, Sabino; Licciulli, Flavio; Ceci, Luigi R.

    2000-01-01

    The current version of PLMItRNA has been realized to constitute a database for tRNA molecules and genes identified in the mitochondria of all green plants (Viridiplantae). It is the enlargement of a previous database originally restricted to seed plants [Ceci,L.R., Volpicella,M., Liuni,S., Volpetti,V., Licciulli,F. and Gallerani,R. (1999) Nucleic Acids Res., 27, 156–157]. PLMItRNA reports information and multialignments on 254 genes and 16 tRNA molecules detected in 25 higher plants (one bryophyta and 24 vascular plants) and seven green algae. PLMItRNA is accessible via the WWW at http://bio-WWW.ba.cnr.it:8000/srs6/ PMID:10592210

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

    Science.gov (United States)

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

    2015-01-01

    The microbial genome database for comparative analysis (MBGD) (available at http://mbgd.genome.ad.jp/) is a comprehensive ortholog database for flexible comparative analysis of microbial genomes, where the users are allowed to create an ortholog table among any specified set of organisms. Because of the rapid increase in microbial genome data owing to the next-generation sequencing technology, it becomes increasingly challenging to maintain high-quality orthology relationships while allowing the users to incorporate the latest genomic data available into an analysis. Because many of the recently accumulating genomic data are draft genome sequences for which some complete genome sequences of the same or closely related species are available, MBGD now stores draft genome data and allows the users to incorporate them into a user-specific ortholog database using the MyMBGD functionality. In this function, draft genome data are incorporated into an existing ortholog table created only from the complete genome data in an incremental manner to prevent low-quality draft data from affecting clustering results. In addition, to provide high-quality orthology relationships, the standard ortholog table containing all the representative genomes, which is first created by the rapid classification program DomClust, is now refined using DomRefine, a recently developed program for improving domain-level clustering using multiple sequence alignment information. PMID:25398900

  17. Update of JAEA-TDB. Update of thermodynamic data for palladium and tin, refinement of thermodynamic data for protactinium, and preparation of PHREEQC database for use of the Brønsted-Guggenheim-Scatchard model

    International Nuclear Information System (INIS)

    The latest available thermodynamic data for palladium and tin were critically reviewed and the selected values were included into the JAEA-TDB for performance assessment calculations for geological disposal of radioactive high-level and TRU wastes. We made sure that the selected data are internally consistent with other data included in the compilation. This critical review specifically addressed thermodynamic data for 1) the palladium-hydroxide-chloride system, and 2) the solid oxides and hydroxido complexes of Sn(IV). We also selected thermodynamic data for other tin reactions from critical review of tin by the Nuclear Energy Agency of the Organisation for Economic Co-operation and Development (OECD/NEA). Furthermore, we refined some thermodynamic data for Protactinium to estimate more reliable solubility values. We prepared text files of the updated thermodynamic database (JAEA-TDB) for geochemical calculation programs of PHREEQC, EQ3/6 and Geochemist's Workbench. Use of the Brønsted-Guggenheim-Scatchard Model (SIT) for ionic strength corrections was applied to the PHREEQC database. A CD-ROM is attached as an appendix. (J.P.N.)

  18. MaizeGDB's New Genome Browser Project

    Science.gov (United States)

    MaizeGDB (http://www.maizegdb.org) is the community database for maize genetics and genomics. Based upon the 2006 MaizeGDB Working Group Report (available at http://www.maizegdb.org/working_group.php) and the Allerton Report (http://www.maizegdb.org/AllertonReport.doc), it has become evident that th...

  19. 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

  20. 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

  1. 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.

  2. 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.

  3. 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

  4. Database Reports Over the Internet

    Science.gov (United States)

    Smith, Dean Lance

    2002-01-01

    Most of the summer was spent developing software that would permit existing test report forms to be printed over the web on a printer that is supported by Adobe Acrobat Reader. The data is stored in a DBMS (Data Base Management System). The client asks for the information from the database using an HTML (Hyper Text Markup Language) form in a web browser. JavaScript is used with the forms to assist the user and verify the integrity of the entered data. Queries to a database are made in SQL (Sequential Query Language), a widely supported standard for making queries to databases. Java servlets, programs written in the Java programming language running under the control of network server software, interrogate the database and complete a PDF form template kept in a file. The completed report is sent to the browser requesting the report. Some errors are sent to the browser in an HTML web page, others are reported to the server. Access to the databases was restricted since the data are being transported to new DBMS software that will run on new hardware. However, the SQL queries were made to Microsoft Access, a DBMS that is available on most PCs (Personal Computers). Access does support the SQL commands that were used, and a database was created with Access that contained typical data for the report forms. Some of the problems and features are discussed below.

  5. The UCSC Genome Browser: What Every Molecular Biologist Should Know

    Science.gov (United States)

    Mangan, Mary E.; Williams, Jennifer M.; Kuhn, Robert M.; Lathe, Warren C.

    2016-01-01

    Electronic data resources can enable molecular biologists to query and display many useful features that make benchwork more efficient and drive new discoveries. The UCSC Genome Browser provides a wealth of data and tools that advance one’s understanding of genomic context for many species, enable detailed understanding of data, and provide the ability to interrogate regions of interest. Researchers can also supplement the standard display with their own data to query and share with others. Effective use of these resources has become crucial to biological research today, and this unit describes some practical applications of the UCSC Genome Browser. PMID:19816931

  6. 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/.

  7. Database Description - 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 RPSD Database... Description General information of database Database name RPSD Alternative name Summary inform...n National Institute of Agrobiological Sciences Toshimasa Yamazaki E-mail : Database classification Structure Database...idopsis thaliana Taxonomy ID: 3702 Taxonomy Name: Glycine max Taxonomy ID: 3847 Database description We have...nts such as rice, and have put together the result and related informations. This database contains the basi

  8. 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 ...

  9. Download - 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 ...Ls by Artio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Download - TP Atlas | LSDB Archive ...

  10. 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 ...

  11. 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 ...rtio About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Nucleotide Sequence - KOME | LSDB Archive ...

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

  13. 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 ...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 ...

  14. 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 ...

  15. 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 ...This Database Database Description Download License Update History of This Database Site Policy | Contact Us Experiments list - DGBY | LSDB Archive ...

  16. Integrating Application Programs for Bioinformatics Using a Web Browser.

    Science.gov (United States)

    Ueno; Asai; Arita

    1999-01-01

    We have constructed a general framework for integrating application programs with control through a local Web browser. This method is based on a simple inter-process message function from an external process to application programs. Commands to a target program are prepared in a script file, which is parsed by a message dispatcher program. When it is used as a helper application to a Web browser, these messages will be sent from the browser by clicking a hyper-link in a Web document. Our framework also supports pluggable extension-modules for application programs by means of dynamic linking. A prototype system is implemented on our molecular structure-viewer program, MOSBY. It successfully featured a function to load an extension-module required for the docking study of molecular fragments from a Web page. Our simple framework facilitates the concise configuration of Web softwares without complicated knowledge on network computation and security issues. It is also applicable for a wide range of network computations processing private data using a Web browser. PMID:11072353

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

    Digital Repository Service at National Institute of Oceanography (India)

    Lakshminarayana, S.

    friendliness, various levels of understanding and data mining tools so that the search engines can facilitate more to the user requirements. In such contexts, the browser will act as a self-reviewed catalyst to accelerate the delivery of quality content....

  18. Context Aware Concurrent Execution Framework for Web Browser

    DEFF Research Database (Denmark)

    Saeed, Aamir; Erbad, Aiman Mahmood; Olsen, Rasmus Løvenstein

    Computing hungry multimedia web applications need to efficiently utilize the device resources. HTML5 web workers is a non-sharing concurrency platform that enables multimedia web application to utilize the available multi-core hardware. HTML5 web workers are implemented by major browser vendors...

  19. Context Aware Concurrent Execution Framework for Web Browsers

    DEFF Research Database (Denmark)

    Saeed, Aamir; Erbad, Aiman; Olsen, Rasmus Løvenstein

    2016-01-01

    Computing hungry multimedia web applications need to efficiently utilize all the resources of a device. HTML5 web workers is a non-sharing concurrency platform that enables multimedia web application to utilize the available multicore hardware. HTML5 web workers are implemented by major browser...

  20. 78 FR 30226 - Accessibility Requirements for Internet Browsers

    Science.gov (United States)

    2013-05-22

    ... Commission adopted rules, published at 76 FR 82353, December 30, 2011, implementing section 716 of the Act...), published at 76 FR 82240, December 30, 2011, that sought comment on rules to implement section 718. Among...] Accessibility Requirements for Internet Browsers AGENCY: Federal Communications Commission. ACTION: Final...

  1. Multimedia consultation session recording and playback using Java-based browser in global PACS

    Science.gov (United States)

    Martinez, Ralph; Shah, Pinkesh J.; Yu, Yuan-Pin

    1998-07-01

    The current version of the Global PACS software system uses a Java-based implementation of the Remote Consultation and Diagnosis (RCD) system. The Java RCD includes a multimedia consultation session between physicians that includes text, static image, image annotation, and audio data. The JAVA RCD allows 2-4 physicians to collaborate on a patient case. It allows physicians to join the session via WWW Java-enabled browsers or stand alone RCD application. The RCD system includes a distributed database archive system for archiving and retrieving patient and session data. The RCD system can be used for store and forward scenarios, case reviews, and interactive RCD multimedia sessions. The RCD system operates over the Internet, telephone lines, or in a private Intranet. A multimedia consultation session can be recorded, and then played back at a later time for review, comments, and education. A session can be played back using Java-enabled WWW browsers on any operating system platform. The JAVA RCD system shows that a case diagnosis can be captured digitally and played back with the original real-time temporal relationships between data streams. In this paper, we describe design and implementation of the RCD session playback.

  2. 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

  3. Updated database plus software for line-mixing in CO2 infrared spectra and their test using laboratory spectra in the 1.5-2.3 μm region

    International Nuclear Information System (INIS)

    In a previous series of papers, a model for the calculation of CO2-air absorption coefficients taking line-mixing into account and the corresponding database/software package were described and widely tested. In this study, we present an update of this package, based on the 2008 version of HITRAN, the latest currently available. The spectroscopic data for the seven most-abundant isotopologues are taken from HITRAN. When the HITRAN data are not complete up to J''=70, the data files are augmented with spectroscopic parameters from the CDSD-296 database and the high-temperature CDSD-1000 if necessary. Previously missing spectroscopic parameters, the air-induced pressure shifts and CO2 line broadening coefficients with H2O, have been added. The quality of this new database is demonstrated by comparisons of calculated absorptions and measurements using CO2 high-pressure laboratory spectra in the 1.5-2.3 μm region. The influence of the imperfections and inaccuracies of the spectroscopic parameters from the 2000 version of HITRAN is clearly shown as a big improvement of the residuals is observed by using the new database. The very good agreements between calculated and measured absorption coefficients confirm the necessity of the update presented here and further demonstrate the importance of line-mixing effects, especially for the high pressures investigated here. The application of the updated database/software package to atmospheric spectra should result in an increased accuracy in the retrieval of CO2 atmospheric amounts. This opens improved perspectives for the space-borne detection of carbon dioxide sources and sinks.

  4. 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.

  5. 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.

  6. 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.

  7. Cell Counting Attack and Browser Attack against TOR Network

    OpenAIRE

    Swati

    2014-01-01

    The onion router (TOR) allows to hide your identity various software under this categories are available that allows online anonymity network, supporting TCP applications over the Internet. It doesn't allow network surveillance or traffic analysis to get tracked but most of these software used equal size of cells (512B). In this paper we are comparing cell-counting attacks and browser attacks against TOR. Different from cell-counting attacks, these attacks can confirm anonymou...

  8. 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...

  9. Visual Physics Data Analysis in the Web Browser

    International Nuclear Information System (INIS)

    The project VISPA-WEB provides a novel graphical development environment for physics analyses which only requires a standard web browser on the client machine. It resembles the existing analysis environment available from the project Visual Physics Analysis VISPA, including the connection and configuration of modules for different tasks. High level logic can be programmed using the Python language, while performance-critical tasks can be implemented in C++ modules. The use cases range from simple teaching examples to highly complex scientific analyses.

  10. Fresnel: A Browser-Independent Presentation Vocabulary for RDF

    OpenAIRE

    Pietriga, Emmanuel; Bizer, Christian; Karger, David; Lee, Ryan

    2006-01-01

    Semantic Web browsers and other tools aimed at displaying RDF data to end users are all concerned with the same problem: presenting content primar- ily intended for machine consumption in a human-readable way. Their solutions differ but in the end address the same two high-level issues, no matter the un- derlying representation paradigm: specifying (i) what information contained in RDF models should be presented (content selection) and (ii) how this informa- tion should be presented (content ...

  11. Browser-based automation testing using selenium webdriver

    OpenAIRE

    Rahman, Md.Foyzur

    2014-01-01

    This thesis deals with automation testing for any web applications on different web browsers using Selenium WebDriver. Automating web applications has been a very important and challenging issue now-a-days for QA engineers and software developers testing web applications. This thesis also briefly describes the advantages and disadvantages of automation and manual testing and in which test cases they can be applied to achieve high quality software. This thesis focuses on automating Gmail on th...

  12. DicomBrowser: Software for Viewing and Modifying DICOM Metadata

    OpenAIRE

    Archie, Kevin A.; Marcus, Daniel S.

    2012-01-01

    Digital Imaging and Communications in Medicine (DICOM) is the dominant standard for medical imaging data. DICOM-compliant devices and the data they produce are generally designed for clinical use and often do not match the needs of users in research or clinical trial settings. DicomBrowser is software designed to ease the transition between clinically oriented DICOM tools and the specialized workflows of research imaging. It supports interactive loading and viewing of DICOM images and metadat...

  13. HistoryLane : Web Browser History Visualization Method

    OpenAIRE

    Chtivelband, Igor

    2012-01-01

    With the evolution of Internet, users exploit it increasingly intensively for achieving their goals: sending emails, playing games, watching videos, reading news. They do it through Web browsers, that may vary in exact implementation, but have similar core functionalities . One of these core functionalities is the access to a browsing history. However, as browsing patterns are getting more complex, the traditional history tools become insufficient. Visualization of browsing history might be h...

  14. Moving Objects Updating

    Science.gov (United States)

    Chen, Jidong; Meng, Xiaofeng

    In moving objects applications, large numbers of locations can be sampled by sensors or GPS periodically, then sent from moving clients to the server and stored in a database. Therefore, continuously maintaining in a database the current locations of moving objects by using a tracking technique becomes very important. The key issue is minimizing the number of updates, while providing precise locations for query results. In this chapter, we will introduce some underlying location update methods. Then, we describe two location update strategies in detail, which can improve the performance. One is the proactive location update strategy, which predicts the movement of moving objects to lower the update frequency; the other is the group location update strategy, which groups the objects to minimize the total number of objects reporting their locations.

  15. WIFI LOCATION FINGERPRINT DATABASE UPDATE ALGORITHM BASED ON USER FEEDBACKS%基于用户反馈的 WiFi 位置指纹数据库更新算法

    Institute of Scientific and Technical Information of China (English)

    林浩; 张熠; 梁久祯

    2015-01-01

    为使 WiFi 位置指纹数据库,不在定位区域 WiFi 环境发生改变时,出现位置指纹过时现象,设计一种更新算法。该算法使用用户的反馈数据,考虑了 AP 信号不稳定情况下 AP 新增与撤销的检测问题;消除了手机热点等临时 AP 对传统更新算法的影响;最终通过检测 AP 位置移动等引起的 RSS 改变,加速位置指纹数据库的更新。实验结果表明,在实际环境中该算法在指纹数据库的更新效率上优于传统更新算法。%We propose an update algorithm for Wi-Fi location fingerprint database will not occur the location fingerprint outdate situation when Wi-Fi environment in location area changes.This algorithm uses feedback data from users and takes APs adding and revocation detection issue in circumstance of AP signal unstable into account,eliminates the impact of temporary AP such as mobile phone hotpot on traditional update methods.Finally,this algorithm accelerates the location fingerprint database’s update by detecting the RSS changes caused by AP location moving.Experimental results show that in actual environment this algorithm is superior to the traditional update algorithms on update efficiency of fingerprint database.

  16. 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.

  17. 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.

  18. Open source MySQL Browser for Open Innovation

    OpenAIRE

    Radu Bucea-Manea-Tonis

    2014-01-01

    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 ...

  19. A Voice Enabled Procedure Browser for the International Space Station

    Science.gov (United States)

    Rayner, Manny; Chatzichrisafis, Nikos; Hockey, Beth Ann; Farrell, Kim; Renders, Jean-Michel

    2005-01-01

    Clarissa, an experimental voice enabled procedure browser that has recently been deployed on the International Space Station (ISS), is to the best of our knowledge the first spoken dialog system in space. This paper gives background on the system and the ISS procedures, then discusses the research developed to address three key problems: grammar-based speech recognition using the Regulus toolkit; SVM based methods for open microphone speech recognition; and robust side-effect free dialogue management for handling undos, corrections and confirmations.

  20. Auditory browser for blind and visually impaired users

    OpenAIRE

    Roth, Patrick; Petrucci, Lori Stefano; Assimacopoulos, André; Pun, Thierry

    1999-01-01

    This paper presents our work on the development of a multimodal auditory interface which permits blind users to work more easily and efficiently with GUI browsers. A macro-analysis phase, which can be either passive or active, informs on the global layout of HTML documents. A subsequent active micro-analysis phase allows to explore particular elements of the document. The interface is based on: ( 1) a mapping of the graphical HTML document into a 3D virtual sound space environment, where non-...

  1. WGE: a CRISPR database for genome engineering

    OpenAIRE

    Hodgkins, Alex; Farne, Anna; Perera, Sajith; Grego, Tiago; Parry-Smith, David J; Skarnes, William C.; Iyer, Vivek

    2015-01-01

    Summary: The rapid development of CRISPR-Cas9 mediated genome editing techniques has given rise to a number of online and stand-alone tools to find and score CRISPR sites for whole genomes. Here we describe the Wellcome Trust Sanger Institute Genome Editing database (WGE), which uses novel methods to compute, visualize and select optimal CRISPR sites in a genome browser environment. The WGE database currently stores single and paired CRISPR sites and pre-calculated off-target information for ...

  2. Nuclear Science References Database

    OpenAIRE

    PRITYCHENKO B.; Běták, E.; B. Singh; Totans, J.

    2013-01-01

    The Nuclear Science References (NSR) database together with its associated Web interface, is the world's only comprehensive source of easily accessible low- and intermediate-energy nuclear physics bibliographic information for more than 210,000 articles since the beginning of nuclear science. The weekly-updated NSR database provides essential support for nuclear data evaluation, compilation and research activities. The principles of the database and Web application development and maintenance...

  3. 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.)

  4. Taxon (Viridiplantae) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

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

  5. Taxon (Cyanobacteria) - PGDBj - Ortholog DB | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

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

  6. Aladin Lite: Embed your Sky in the Browser

    Science.gov (United States)

    Boch, T.; Fernique, P.

    2014-05-01

    I will introduce and describe Aladin Lite1, a lightweight interactive sky viewer running natively in the browser. The past five years have seen the emergence of powerful and complex web applications, thanks to major improvements in JavaScript engines and the advent of HTML5. At the same time, browser plugins Java applets, Flash, Silverlight) that were commonly used to run rich Internet applications are declining and are not well suited for mobile devices. The Aladin team took this opportunity to develop Aladin Lite, a lightweight version of Aladin geared towards simple visualization of a sky region. Relying on the widely supported HTML5 canvas element, it provides an intuitive user interface running on desktops and tablets. This first version allows one to interactively visualize multi-resolution HEALPix image and superimpose tabular data and footprints. Aladin Lite is easily embeddable on any web page and may be of interest for data providers which will be able to use it as an interactive previewer for their own image surveys, previously pre-processed as explained in details in the poster "Create & publish your Hierarchical Progressive Survey". I will present the main features of Aladin Lite as well as the JavaScript API which gives the building blocks to create rich interactions between a web page and Aladin Lite.

  7. 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.

  8. 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 ...ip (41.9 KB) - Downlaod via FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  9. Evaluation and Usage of Browser Compatibility Tools during the Software Development Process

    OpenAIRE

    Boyaci, Burak

    2016-01-01

    The software testing process is one of the most important phases during software development to check that the developed software product meets its specified specifications/requirements. This is especially true for the software products used in the health-industry. Supported browsers can also be documented into the requirements. Thus browser compatibility testing needs to be considered, especially while performing testing on web-based software products. Browser compatibility testing is perfor...

  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. Image File - 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 ...io About This Database Database Description Download License Update History of This Database Site Policy | Contact Us Image File - AT Atlas | LSDB Archive ...

  13. 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 ...

  14. 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 ...

  15. 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 ...

  16. 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 ...

  17. 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 ...

  18. Database Description - 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 Database... Description General information of database Database name GETDB Alternative name Gal4 Enhancer Trap Insertion Database... +81-78-306-3183 E-mail: Database classification Expression Invertebrate genome database Organism Taxonomy N...ame: Drosophila melanogaster Taxonomy ID: 7227 Database description About 4,600 i...nsertion lines of enhancer trap lines based on the Gal4-UAS method were generated in Drosophila, and all of

  19. 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

  20. Database Description - 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 Database... Description General information of database Database name ClEST Alternative name Cimex lectul...6812 (ext.222-36812) Fax: +81-29-861-6812 E-mail: Database classification Nucleotide Sequence Database...s Organism Taxonomy Name: Cimex lectularius Taxonomy ID: 79782 Database description Exp...ressed sequence tags (EST) database of unique organs and whole bodies of the bedbug, Cimex lectularius Featu

  1. 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. PMID:27350455

  2. 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.

  3. 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.

  4. 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%.

  5. 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.

  6. National Utility Rate Database: Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Ong, S.; McKeel, R.

    2012-08-01

    When modeling solar energy technologies and other distributed energy systems, using high-quality expansive electricity rates is essential. The National Renewable Energy Laboratory (NREL) developed a utility rate platform for entering, storing, updating, and accessing a large collection of utility rates from around the United States. This utility rate platform lives on the Open Energy Information (OpenEI) website, OpenEI.org, allowing the data to be programmatically accessed from a web browser, using an application programming interface (API). The semantic-based utility rate platform currently has record of 1,885 utility rates and covers over 85% of the electricity consumption in the United States.

  7. 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…

  8. Just-in-time Database-Driven Web Applications

    OpenAIRE

    Ong, Kenneth R

    2003-01-01

    "Just-in-time" database-driven Web applications are inexpensive, quickly-developed software that can be put to many uses within a health care organization. Database-driven Web applications garnered 73873 hits on our system-wide intranet in 2002. They enabled collaboration and communication via user-friendly Web browser-based interfaces for both mission-critical and patient-care-critical functions. Nineteen database-driven Web applications were developed. The application categories that compri...

  9. Kalium: a database of potassium channel toxins from scorpion venom

    OpenAIRE

    Kuzmenkov, Alexey I.; Krylov, Nikolay A.; Anton O. Chugunov; Grishin, Eugene V.; Vassilevski, Alexander A.

    2016-01-01

    Kalium (http://kaliumdb.org/) is a manually curated database that accumulates data on potassium channel toxins purified from scorpion venom (KTx). This database is an open-access resource, and provides easy access to pages of other databases of interest, such as UniProt, PDB, NCBI Taxonomy Browser, and PubMed. General achievements of Kalium are a strict and easy regulation of KTx classification based on the unified nomenclature supported by researchers in the field, removal of peptides with p...

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

    OpenAIRE

    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 processin...

  11. 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...

  12. 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.

  13. Test Plan to Update SRS High Level Waste Tank Material Properties Database by Determining Synergistic Effects of Dynamic Strain Aging and Stress Corrosion Cracking

    International Nuclear Information System (INIS)

    The structural integrity of High Level Waste tanks is defined by the demonstrated confinement of the waste by the tank structure under design basis conditions. a comprehensive test plan is presented here to develop a mechanical and corrosion properties database to develop a fundamental understanding of the synergistic effects of DSA and SCC due to high temperature service of the HLW tanks

  14. Test Plan to Update SRS High Level Waste Tank Material Properties Database by Determining Synergistic Effects of Dynamic Strain Aging and Stress Corrosion Cracking; TOPICAL

    International Nuclear Information System (INIS)

    The structural integrity of High Level Waste tanks is defined by the demonstrated confinement of the waste by the tank structure under design basis conditions. a comprehensive test plan is presented here to develop a mechanical and corrosion properties database to develop a fundamental understanding of the synergistic effects of DSA and SCC due to high temperature service of the HLW tanks

  15. Radioactive waste management profiles. A compilation of data from the Net Enabled Waste Management Database (NEWMDB). No. 6, November 2004 (last updated 2004.12.16)

    International Nuclear Information System (INIS)

    This Radioactive Waste Management Profiles report is a compilation of data collected by the Net Enabled Waste Management Database (NEWDB) from March to July 2004. The report contains information on national radioactive waste management programmes, plans and activities, relevant laws and regulations, policies and radioactive waste inventories. It provides or references details of the scope of NEWMDB data collections and it explains the formats of individual NEWMDB report pages

  16. Download - RGP gmap | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available 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 ...

  17. Database Optimizing Services

    Directory of Open Access Journals (Sweden)

    Adrian GHENCEA

    2010-12-01

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

  18. UTRdb and UTRsite: specialized databases of sequences and functional elements of 5′ and 3′ untranslated regions of eukaryotic mRNAs. Update 2002

    Science.gov (United States)

    Pesole, Graziano; Liuni, Sabino; Grillo, Giorgio; Licciulli, Flavio; Mignone, Flavio; Gissi, Carmela; Saccone, Cecilia

    2002-01-01

    The 5′- and 3′-untranslated regions (5′- and 3′-UTRs) of eukaryotic mRNAs are known to play a crucial role in post-transcriptional regulation of gene expression modulating nucleo-cytoplasmic mRNA transport, translation efficiency, subcellular localization and stability. UTRdb is a specialized database of 5′ and 3′ untranslated sequences of eukaryotic mRNAs cleaned from redundancy. UTRdb entries are enriched with specialized information not present in the primary databases including the presence of nucleotide sequence patterns already demonstrated by experimental analysis to have some functional role. All these patterns have been collected in the UTRsite database so that it is possible to search any input sequence for the presence of annotated functional motifs. Furthermore, UTRdb entries have been annotated for the presence of repetitive elements. All Internet resources we implemented for retrieval and functional analysis of 5′- and 3′-UTRs of eukaryotic mRNAs are accessible at http://bighost.area.ba.cnr.it/BIG/UTRHome/. PMID:11752330

  19. 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.

  20. CAPER: a chromosome-assembled human proteome browsER.

    Science.gov (United States)

    Guo, Feifei; Wang, Dan; Liu, Zhongyang; Lu, Liang; Zhang, Wei; Sun, Haiyan; Zhang, Hongxing; Ma, Jie; Wu, Songfeng; Li, Ning; Jiang, Ying; Zhu, Weimin; Qin, Jun; Xu, Ping; Li, Dong; He, Fuchu

    2013-01-01

    High-throughput mass spectrometry and antibody-based experiments have begun to produce a large amount of proteomic data sets. Chromosome-based visualization of these data sets and their annotations can help effectively integrate, organize, and analyze them. Therefore, we developed a web-based, user-friendly Chromosome-Assembled human Proteome browsER (CAPER). To display proteomic data sets and related annotations comprehensively, CAPER employs two distinct visualization strategies: track-view for the sequence/site information and the correspondence between proteome, transcriptome, genome, and chromosome and heatmap-view for the qualitative and quantitative functional annotations. CAPER supports data browsing at multiple scales through Google Map-like smooth navigation, zooming, and positioning with chromosomes as the reference coordinate. Both track-view and heatmap-view can mutually switch, providing a high-quality user interface. Taken together, CAPER will greatly facilitate the complete annotation and functional interpretation of the human genome by proteomic approaches, thereby making a significant contribution to the Chromosome-Centric Human Proteome Project and even the human physiology/pathology research. CAPER can be accessed at http://www.bprc.ac.cn/CAPE . PMID:23256906

  1. 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...

  2. 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).

  3. 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. PMID:25432968

  4. WebCSD: the online portal to the Cambridge Structural Database

    OpenAIRE

    Thomas, Ian R.; Bruno, Ian J.; Cole, Jason C; Macrae, Clare F.; Pidcock, Elna; Wood, Peter A.

    2010-01-01

    WebCSD, a new web-based application developed by the Cambridge Crystallographic Data Centre, offers fast searching of the Cambridge Structural Database using only a standard internet browser. Search facilities include two-dimensional substructure, molecular similarity, text/numeric and reduced cell searching. Text, chemical diagrams and three-dimensional structural information can all be studied in the results browser using the efficient entry summaries and embedded three-dimensional viewer.

  5. Oomycete transcriptomics database: A resource for oomycete transcriptomes

    Directory of Open Access Journals (Sweden)

    Tripathy Sucheta

    2012-07-01

    Full Text Available Abstract Background Oomycete pathogens have attracted significant attention in recent years due to their economic impact. With improving sequencing technologies, large amounts of oomycete transcriptomics data are now available which have great biological utility. A known bottleneck with next generation sequencing data however lies with their analysis, interpretation, organization, storage and visualization. A number of efforts have been made in this respect resulting in development of a myriad of resources. Most of the existing NGS browsers work as standalone applications that need processed data to be uploaded to the browser locally for visualization. At the same time, several oomycete EST databases such as PFGD, ESTAP and SPC, are not available anymore, so there is an immediate need for a database resource that can store and disseminate this legacy information in addition to NGS data. Description Oomycetes Transcriptomics Database is an integrated transcriptome and EST data resource for oomycete pathogens. The database currently stores processed ABI SOLiD transcript sequences from Phytophthora sojae and its host soybean (P. sojae mycelia, healthy soybean and P. sojae-infected soybean as well as Illumina transcript sequences from five Hyaloperonospora arabidopsidis libraries. In addition to those resources, it has also a complete set of Sanger EST sequences from P. sojae, P. infestans and H. arabidopsidis grown under various conditions. A web-based transcriptome browser was created for visualization of assembled transcripts, their mapping to the reference genome, expression profiling and depth of read coverage for particular locations on the genome. The transcriptome browser merges EST-derived contigs with NGS-derived assembled transcripts on the fly and displays the consensus. OTD possesses strong query features and the database interacts with the VBI Microbial Database as well as the Phytophthora Transcriptomics Database. Conclusion Oomycete

  6. MySQL Database

    OpenAIRE

    Jimoh, Morufu

    2010-01-01

    The main objectives of this thesis were to show how it is much easier and faster to find required information from computer database than from other data storage systems or old fashioned way. We will be able to add, retrieve and update data in a computer database easily. Using computer database for company to keep the information for their customer is the objective of my thesis. It is faster which makes it economically a better solution. The project has six tables which are branch, st...

  7. Autoplot: a Browser for Science Data on the Web

    Science.gov (United States)

    Faden, J.; Weigel, R. S.; West, E. E.; Merka, J.

    2008-12-01

    Autoplot (www.autoplot.org) is software for plotting data from many different sources and in many different file formats. Data from CDF, CEF, Fits, NetCDF, and OpenDAP can be plotted, along with many other sources such as ASCII tables and Excel spreadsheets. This is done by adapting these various data formats and APIs into a common data model that borrows from the netCDF and CDF data models. Autoplot uses a web browser metaphor to simplify use. The user specifies a parameter URL, for example a CDF file accessible via http with a parameter name appended, and the file resource is downloaded and the parameter is rendered in a scientifically meaningful way. When data span multiple files, the user can use a file name template in the URL to aggregate (combine) a set of remote files. So the problem of aggregating data across file boundaries is handled on the client side, allowing simple web servers to be used. The das2 graphics library provides rich controls for exploring the data. Scripting is supported through Python, providing not just programmatic control, but for calculating new parameters in a language that will look familiar to IDL and Matlab users. Autoplot is Java-based software, and will run on most computers without a burdensome installation process. It can also used as an applet or as a servlet that serves static images. Autoplot was developed as part of the Virtual Radiation Belt Observatory (ViRBO) project, and is also being used for the Virtual Magnetospheric Observatory (VMO). It is expected that this flexible, general-purpose plotting tool will be useful for allowing a data provider to add instant visualization capabilities to a directory of files or for general use in the Virtual Observatory environment.

  8. 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.

  9. The video browser showdown: a live evaluation of interactive video search tools

    OpenAIRE

    Schoeffmann, Klaus; Ahlstroehm, David; Bailer, Werner; Cobarzan, Claudiu; Hopfgartner, Frank; McGuinness, Kevin; Gurrin, Cathal; Frisson, Christian; Le, Duy-Dinh; Del Fabro, Manfred; Bai, Hongliang; Weiss, Wolfgang

    2014-01-01

    The Video Browser Showdown evaluates the performance of exploratory video search tools on a common data set in a common environment and in presence of the audience. The main goal of this competition is to enable researchers in the field of interactive video search to directly compare their tools at work. In this paper, we present results from the second Video Browser Showdown (VBS2013) and describe and evaluate the tools of all participating teams in detail. The evaluation results give insigh...

  10. Comcutejs: A Web Browser Based Platform For Large-Scale Computations

    Directory of Open Access Journals (Sweden)

    Roman Debski

    2013-01-01

    Full Text Available The paper presents a new, cost effective, volunteer computing based platform.It utilizes volunteers’ web browsers as computational nodes. The computationaltasks are delegated to the browsers and executed in the background (indepen-dently of any user interface scripts making use of the HTML5 web workerstechnology. The capabilities of the platform have been proved by experimentsperformed in a wide range of numbers of computational nodes (1–400.

  11. Comcutejs: A Web Browser Based Platform For Large-Scale Computations

    OpenAIRE

    Roman Debski; Tomasz Krupa; Przemyslaw Majewski

    2013-01-01

    The paper presents a new, cost effective, volunteer computing based platform.It utilizes volunteers’ web browsers as computational nodes. The computationaltasks are delegated to the browsers and executed in the background (indepen-dently of any user interface scripts) making use of the HTML5 web workerstechnology. The capabilities of the platform have been proved by experimentsperformed in a wide range of numbers of computational nodes (1–400).

  12. 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)

  13. AMDIS and CHART update. 1

    International Nuclear Information System (INIS)

    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)

  14. 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.

  15. Database Description - 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 DMPD Database... Description General information of database Database name DMPD Alternative name Dynamic Macrophage Pathway CSML Databas...108-8639 Tel: +81-3-5449-5615 FAX: +83-3-5449-5442 E-mail: Database classification Metabolic and Signaling P...malia Taxonomy ID: 40674 Database description DMPD collects pathway models of transcriptional regulation and... signal transduction in CSML format for dymamic simulation based on the curation of descriptions about LPS a

  16. A Protocol, a standard and a (PULI) database for quantitative micro-FTIR measurements of water in nominally anhydrous minerals: an update

    Science.gov (United States)

    Kovacs, Istvan; Udvardi, Beatrix; Pintér, Zsanett; Hidas, Károly; Kutassy, Lászlóné; Falus, György; Lendvay, Pál; István, Török; Zelei, Tamás; Fancsik, Tamás; Gál, Tamás; Mihály, Judith; Németh, Csaba; Ingrin, Jannick; Xia, Qunke; Hermann, Jörg; Stalder, Roland; Perucchi, Andrea; Kamarás, Katalin; Szekrényes, Zsolt

    2014-05-01

    keep up with this rising numbers of infrared spectra an electronic spectral database would be desirable. This was the motivation why we have constructed the Pannon Uniform Lithosheric Infrared (PULI) spectral database ( puli.mfgi.hu ), which by now include over a 1000 spectra of olivine and pyroxenes from the shallow upper mantle. The spectra were collected in uniform electronic formats (txt or xls) which will facilitate the comparison and quantitative re-evaluation.

  17. Amino Acid 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 ...CE Amino acid sequence Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  18. Designation of organism group - 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 ...1 to 6) Joomla SEF URLs by Artio About This Database Database Description Download License Update History of

  19. All 5' EST - 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 ...ST name SEQUENCE 5' EST sequence Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  20. Download - 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 ... FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History of Th

  1. RPD link 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 ...nd the clone Joomla SEF URLs by Artio About This Database Database Description Download License Update History

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

  3. Download - 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 ...Downlaod via FTP Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  4. 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

  5. ORF 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 ...no acid Sequence Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  6. All 3' EST - 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 ...ST name SEQUENCE 3' EST sequence Joomla SEF URLs by Artio About This Database Database Description Download License Update History

  7. 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 ...

  8. Cell viability - 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... Database Description Download License Update History of This Database Site Policy | Contact Us Cell viability - Open TG-GATEs | LSDB Archive ...

  9. 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 Open...e Database Description Download License Update History of This Database Site Policy | Contact Us Biochemistry - Open TG-GATEs | LSDB Archive ...

  10. 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

  11. 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 ...

  12. 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

  13. 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 Plabrain... . If you use data from this database, please be sure attribute this database as follows: Plabrain DB © 2010...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 ...

  14. 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 ...

  15. 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 ...

  16. 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 ...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 ...

  17. Expanded protein information at SGD: new pages and proteome browser

    OpenAIRE

    Nash, Robert; Weng, Shuai; Hitz, Ben; Balakrishnan, Rama; Christie, Karen R.; Costanzo, Maria C.; Dwight, Selina S.; Engel, Stacia R.; Fisk, Dianna G.; Hirschman, Jodi E.; Hong, Eurie L.; Livstone, Michael S.; Oughtred, Rose; Park, Julie; Skrzypek, Marek

    2006-01-01

    The recent explosion in protein data generated from both directed small-scale studies and large-scale proteomics efforts has greatly expanded the quantity of available protein information and has prompted the Saccharomyces Genome Database (SGD; ) to enhance the depth and accessibility of protein annotations. In particular, we have expanded ongoing efforts to improve the integration of experimental information and sequence-based predictions and have redesigned the protein information web pages...

  18. Protein - 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 ...base Description Download License Update History of This Database Site Policy | Contact Us Protein - AT Atlas | LSDB Archive ...

  19. 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 ...

  20. 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 ... Download License Update History of This Database Site Policy | Contact Us Main - KOME | LSDB Archive ...

  1. Download - 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 ...base Description Download License Update History of This Database Site Policy | Contact Us Download - AT Atlas | LSDB Archive ...

  2. 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 ...Description Download License Update History of This Database Site Policy | Contact Us Main data - RMG | LSDB Archive ...

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

  4. 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.

  5. Lombard speech database for German language

    OpenAIRE

    Soloducha, Michal; Raake, Alexander; Kettler, Frank; Voigt, Peter

    2016-01-01

    This is a publication of Lombard speech database for German language. Additionally, a GitHub project has been created where information about database updates and related data will be stored: https://github.com/Telecommunication-Telemedia-Assessment/Lombard-Speech-database.git

  6. Outdated document retrieved using a web browser, Hanford site, USA. Annex II-3

    International Nuclear Information System (INIS)

    While workers have an obligation to ensure that they are using the latest version of a document, they generally assume that they will receive the latest approved version when accessing a document from the web. This is typically a valid assumption because the Hanford site default browser setting forces the data to be refreshed each time a web page is accessed. In this case, a procedure user's browser setting had been changed from the default setting. As a result, they unknowingly accessed an outdated procedure because the older version had been cached on their system by the web browser. Site administrators should consider restricting users' ability to change browser settings from the configuration that forces a refresh procedure every time a web page is visited. Implementing a system to periodically reset them to the default setting is another option. For web sites where referenced documents change on a frequent basis, changes can be implemented to prevent workstations from caching information. Such changes will force all users accessing that web site to obtain the latest versions of documents regardless of the client browser setting. Web authors and those responsible for reference web servers (e.g. procedure web sites) should review the information in the technical supplement, and implement the appropriate techniques listed there for preventing documents from being stored in the user's cache

  7. A user-centred evaluation framework for the Sealife semantic web browsers

    Science.gov (United States)

    Oliver, Helen; Diallo, Gayo; de Quincey, Ed; Alexopoulou, Dimitra; Habermann, Bianca; Kostkova, Patty; Schroeder, Michael; Jupp, Simon; Khelif, Khaled; Stevens, Robert; Jawaheer, Gawesh; Madle, Gemma

    2009-01-01

    Background Semantically-enriched browsing has enhanced the browsing experience by providing contextualised dynamically generated Web content, and quicker access to searched-for information. However, adoption of Semantic Web technologies is limited and user perception from the non-IT domain sceptical. Furthermore, little attention has been given to evaluating semantic browsers with real users to demonstrate the enhancements and obtain valuable feedback. The Sealife project investigates semantic browsing and its application to the life science domain. Sealife's main objective is to develop the notion of context-based information integration by extending three existing Semantic Web browsers (SWBs) to link the existing Web to the eScience infrastructure. Methods This paper describes a user-centred evaluation framework that was developed to evaluate the Sealife SWBs that elicited feedback on users' perceptions on ease of use and information findability. Three sources of data: i) web server logs; ii) user questionnaires; and iii) semi-structured interviews were analysed and comparisons made between each browser and a control system. Results It was found that the evaluation framework used successfully elicited users' perceptions of the three distinct SWBs. The results indicate that the browser with the most mature and polished interface was rated higher for usability, and semantic links were used by the users of all three browsers. Conclusion Confirmation or contradiction of our original hypotheses with relation to SWBs is detailed along with observations of implementation issues. PMID:19796398

  8. Nuclear Science References Database

    International Nuclear Information System (INIS)

    The Nuclear Science References (NSR) database together with its associated Web interface, is the world's only comprehensive source of easily accessible low- and intermediate-energy nuclear physics bibliographic information for more than 210,000 articles since the beginning of nuclear science. The weekly-updated NSR database provides essential support for nuclear data evaluation, compilation and research activities. The principles of the database and Web application development and maintenance are described. Examples of nuclear structure, reaction and decay applications are specifically included. The complete NSR database is freely available at the websites of the National Nuclear Data Center (http://www.nndc.bnl.gov/nsr) and the International Atomic Energy Agency (http://www-nds.iaea.org/nsr)

  9. 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. PMID:24618044

  10. The CHIANTI atomic database

    CERN Document Server

    Young, Peter R; Landi, Enrico; Del Zanna, Giulio; Mason, Helen

    2015-01-01

    The CHIANTI atomic database was first released in 1996 and has had a huge impact on the analysis and modeling of emissions from astrophysical plasmas. The database has continued to be updated, with version 8 released in 2015. Atomic data for modeling the emissivities of 246 ions and neutrals are contained in CHIANTI, together with data for deriving the ionization fractions of all elements up to zinc. The different types of atomic data are summarized here and their formats discussed. Statistics on the impact of CHIANTI to the astrophysical community are given and examples of the diverse range of applications are presented.

  11. 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.

  12. 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.

  13. 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.

  14. 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.

  15. 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

    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...

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

    DEFF Research Database (Denmark)

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

    2009-01-01

    readability and increased functionality compared to other browsers. The tool allows the user to select the display of various genomic features, color setting and data ranges. Custom numerical data can be added to the plot, allowing for example visualization of gene expression and regulation data. Further......, standard atlases are pre-generated for all prokaryotic genomes available in GenBank, providing a fast overview of all available genomes, including recently deposited genome sequences. The tool is available online from http://www.cbs.dtu.dk/services/gwBrowser. [Supplemental material including interactive...

  17. Database replication

    OpenAIRE

    Popov, P. T.; Stankovic, V.

    2014-01-01

    A fault-tolerant node for synchronous heterogeneous database replication and a method for performing a synchronous heterogenous database replication at such a node are provided. A processor executes a computer program to generate a series of database transactions to be carried out at the fault-tolerant node. The fault-tolerant node comprises at least two relational database management systems, each of which are different relational database management system products, each implementing snapsh...

  18. Communicative Databases

    OpenAIRE

    Yu, Kwang-I

    1981-01-01

    A hierarchical organization stores its information in a la rge number of databases. These databases are interrelated , forming a closely-coupled database system. Traditional information systems and current database management systems do not have a means of expressing these relationships. This thesis describes a model of the information structure of the hierarchical organization that identifies the nature of database relationships. It also describes the design and implementatio...

  19. 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...... way are conflict serializable and preserve consistency. For certain classes of databases we also guarantee that the amount of locked database entities is minimal....

  20. Provincial Land Utilization Database Construction Analysis

    OpenAIRE

    Shiwu XU; Wenfeng LIAO

    2009-01-01

    According to the requirements of provincial land management operation, this paper introduced a method to build municipal land usage database on country level land usage database building. It realizes provincial land usage data updating, transfer and application management. This paper analyzed provincial land usage database construction requirements from data, software and hardware environment, database, etc. It also designed the mathematic base, land usage data feature, data dictionary and me...

  1. Literature searches on Ayurveda: An update

    OpenAIRE

    Aggithaya, Madhur G.; Narahari, Saravu R.

    2015-01-01

    Introduction: The journals that publish on Ayurveda are increasingly indexed by popular medical databases in recent years. However, many Eastern journals are not indexed biomedical journal databases such as PubMed. Literature searches for Ayurveda continue to be challenging due to the nonavailability of active, unbiased dedicated databases for Ayurvedic literature. In 2010, authors identified 46 databases that can be used for systematic search of Ayurvedic papers and theses. This update revie...

  2. Update of RIPL Discrete Levels

    International Nuclear Information System (INIS)

    The first update of the Reference Input Parameter Library Phase II (RIPL-2) Discrete Level Scheme Library (DLSL) was performed in October 2005 by T. Belgya under a Contract Agreement with the IAEA. The second update followed in 2007 with the setup of easy-to-use programs which can use the original ENSDF files to create the DLSL in the format that was defined in RIPL-2. There is a description which serves as a guide to any user who wants to run the program(s). The results of the update were also reported. The current work represents a new update of the database, addressing and amending the problems which have occurred and were reported during the last 5 years. The updated version of RIPL- 2, RIPL-3 was published in December 2009. The purpose of this report is to document the changes in the new DLSL.

  3. OLSVis: an animated, interactive visual browser for bio-ontologies

    Directory of Open Access Journals (Sweden)

    Vercruysse Steven

    2012-07-01

    Full Text Available Abstract Background More than one million terms from biomedical ontologies and controlled vocabularies are available through the Ontology Lookup Service (OLS. Although OLS provides ample possibility for querying and browsing terms, the visualization of parts of the ontology graphs is rather limited and inflexible. Results We created the OLSVis web application, a visualiser for browsing all ontologies available in the OLS database. OLSVis shows customisable subgraphs of the OLS ontologies. Subgraphs are animated via a real-time force-based layout algorithm which is fully interactive: each time the user makes a change, e.g. browsing to a new term, hiding, adding, or dragging terms, the algorithm performs smooth and only essential reorganisations of the graph. This assures an optimal viewing experience, because subsequent screen layouts are not grossly altered, and users can easily navigate through the graph. URL: http://ols.wordvis.com Conclusions The OLSVis web application provides a user-friendly tool to visualise ontologies from the OLS repository. It broadens the possibilities to investigate and select ontology subgraphs through a smooth visualisation method.

  4. About Updating

    OpenAIRE

    Smets, Philippe

    2013-01-01

    Survey of several forms of updating, with a practical illustrative example. We study several updating (conditioning) schemes that emerge naturally from a common scenarion to provide some insights into their meaning. Updating is a subtle operation and there is no single method, no single 'good' rule. The choice of the appropriate rule must always be given due consideration. Planchet (1989) presents a mathematical survey of many rules. We focus on the practical meaning of these rules. After sum...

  5. Protection of Web User’s Privacy by Securing Browser from Web Privacy Attacks

    Directory of Open Access Journals (Sweden)

    Sanket Baviskar

    2011-07-01

    Full Text Available The Internet and World Wide Web being an essential part of everyone’s life, the users have become more conscious about their privacy. The user’s web privacy unfortunately, is not focused much by the current browsers. This paper focuses on the attacks which compromises user’s anonymity, grab user’s private data. It highlights the privacy attacks such as history sniffing, web beacons, browser fingerprinting. We focus on the protection of user’s information which is transferred over the network to the web server without the users consent rather than stealing attempts which fools the user and trap them to install malicious software which perform the theft, using social engineering techniques. A generic algorithm has been proposed in this paper which will stop the attacker from violating privacy. We have proposed a secure way of interaction between browser objects through browser API’S and the JavaScript. We developed an add-on which implements the proposed solution.

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

    NARCIS (Netherlands)

    B. Bodó

    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

  7. COMPARATIVE STUDY OF BROWSER BASED OPEN SOURCE TESTING TOOLS WATIR AND WET

    Directory of Open Access Journals (Sweden)

    Nisha Gogna,

    2011-05-01

    Full Text Available Recently, web browser based applications have become very popular in many domains. As an important method to ensure the quality of Web applications, Web testing attracts more and more attentions in the academic community and industrial world. Testing Web applications raises new problems and faces very high challenges. Recently web applications have grown rapidly and have become more and more complex. As web applications become more complex, there is a growing concern about their quality. Web application testing is a challenging work owing to its dynamic behaviors and complex dependencies. As in case what if the end user uses different types of browsers to access the application. So, to deal with Browser compatibility issue this work proposes Browser based testing tools named as Watir (Web Application Testing in Ruby and WET for the scenario of web-based applications. Starting with the preliminary architectural design, this paper includes the testing scenario for both the tools alongwith the comparative analysis based on well defined parameters.

  8. A browser-based event display for the CMS experiment at the LHC

    Science.gov (United States)

    Hategan, M.; McCauley, T.; Nguyen, P.

    2012-12-01

    The line between native and web applications is becoming increasingly blurred as modern web browsers are becoming powerful platforms on which applications can be run. Such applications are trivial to install and are readily extensible and easy to use. In an educational setting, web applications permit a way to deploy deploy tools in a highly-restrictive computing environment. The I2U2 collaboration has developed a browser-based event display for viewing events in data collected and released to the public by the CMS experiment at the LHC. The application itself reads a JSON event format and uses the JavaScript 3D rendering engine pre3d. The only requirement is a modern browser using HTML5 canvas. The event display has been used by thousands of high school students in the context of programs organized by I2U2, QuarkNet, and IPPOG. This browser-based approach to display of events can have broader usage and impact for experts and public alike.

  9. 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...

  10. 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

    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 be...

  11. MINT, the molecular interaction database: 2009 update

    OpenAIRE

    Ceol, A.; Chatr Aryamontri, A.; Licata, L.; D. Peluso; Briganti, L.; Perfetto, L.; Castagnoli, L.; Cesareni, G.

    2009-01-01

    MINT (http://mint.bio.uniroma2.it/mint) is a public repository for molecular interactions reported in peer-reviewed journals. Since its last report, MINT has grown considerably in size and evolved in scope to meet the requirements of its users. The main changes include a more precise definition of the curation policy and the development of an enhanced and user-friendly interface to facilitate the analysis of the ever-growing interaction dataset. MINT has adopted the PSI-MI standards for the a...

  12. 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 wit...... website, methodologies and data used by Rfam are discussed. Rfam is freely available on the Web at http://rfam.sanger.ac.uk/and http://rfam.janelia.org/....

  13. 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.

  14. 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

  15. 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. PMID:27134485

  16. The Global Terrorism Database: Accomplishments and Challenges

    OpenAIRE

    Gary LaFree

    2010-01-01

    The paper provides an update on the Global Terrorism Database (GTD), an open source event database that now includes information on over 82,000 domestic and international terrorist attacks since 1970. [1] GTD was launched by computerizing data originally collected by the Pinkerton Global Intelligence Service (PGIS).[2] Following computerization, the research team has continued working to update and validate the data. This paper describes original data collection efforts and the strategies emp...

  17. 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...

  18. 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...

  19. 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.

  20. Implementing a modular framework in a conditions database explorer for ATLAS

    International Nuclear Information System (INIS)

    The ATLAS conditions databases will be used to manage information of quite diverse nature and level of complexity. The usage of a relational database manager like Oracle, together with the object managers POOL and OKS developed in-house, poses special difficulties in browsing the available data while understanding its structure in a general way. This is particularly relevant for the database browser projects where it is difficult to link with the class defining libraries generated by general frameworks such as Athena. A modular approach to tackle these problems is presented here. The database infrastructure is under development using the LCG COOL infrastructure, and provides a powerful information sharing gateway upon many different systems. The nature of the stored information ranges from temporal series of simple values up to very complex objects describing the configuration of systems like ATLAS' TDAQ infrastructure, including also associations to large objects managed outside of the database infrastructure. An important example of this architecture is the Online Objects Extended Database BrowsEr (NODE), which is designed to access and display all data, available in the ATLAS Monitoring Data Archive (MDA), including histograms and data tables. To deal with the special nature of the monitoring objects, a plugin from the MDA framework to the Time managed science Instrument Databases (TIDB2) is used. The database browser is extended, in particular to include operations on histograms such as display, overlap, comparisons as well as commenting and local storage

  1. Advantages to Geoscience and Disaster Response from QuakeSim Implementation of Interferometric Radar Maps in a GIS Database System

    Science.gov (United States)

    Parker, Jay; Donnellan, Andrea; Glasscoe, Margaret; Fox, Geoffrey; Wang, Jun; Pierce, Marlon; Ma, Yu

    2015-08-01

    High-resolution maps of earth surface deformation are available in public archives for scientific interpretation, but are primarily available as bulky downloads on the internet. The NASA uninhabited aerial vehicle synthetic aperture radar (UAVSAR) archive of airborne radar interferograms delivers very high resolution images (approximately seven meter pixels) making remote handling of the files that much more pressing. Data exploration requiring data selection and exploratory analysis has been tedious. QuakeSim has implemented an archive of UAVSAR data in a web service and browser system based on GeoServer (http://geoserver.org). This supports a variety of services that supply consistent maps, raster image data and geographic information systems (GIS) objects including standard earthquake faults. Browsing the database is supported by initially displaying GIS-referenced thumbnail images of the radar displacement maps. Access is also provided to image metadata and links for full file downloads. One of the most widely used features is the QuakeSim line-of-sight profile tool, which calculates the radar-observed displacement (from an unwrapped interferogram product) along a line specified through a web browser. Displacement values along a profile are updated to a plot on the screen as the user interactively redefines the endpoints of the line and the sampling density. The profile and also a plot of the ground height are available as CSV (text) files for further examination, without any need to download the full radar file. Additional tools allow the user to select a polygon overlapping the radar displacement image, specify a downsampling rate and extract a modest sized grid of observations for display or for inversion, for example, the QuakeSim simplex inversion tool which estimates a consistent fault geometry and slip model.

  2. 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…

  3. 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. PMID:26481361

  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. The Hidden Dimensions of Databases.

    Science.gov (United States)

    Jacso, Peter

    1994-01-01

    Discusses methods of evaluating commercial online databases and provides examples that illustrate their hidden dimensions. Topics addressed include size, including the number of records or the number of titles; the number of years covered; and the frequency of updates. Comparisons of Readers' Guide Abstracts and Magazine Article Summaries are…

  6. Reactome: a database of reactions, pathways and biological processes

    OpenAIRE

    Croft, David; O’Kelly, Gavin; Wu, Guanming; Haw, Robin; Gillespie, Marc; Matthews, Lisa; Caudy, Michael; Garapati, Phani; Gopinath, Gopal; Jassal, Bijay; Jupe, Steven; Kalatskaya, Irina; Mahajan, Shahana; May, Bruce; Ndegwa, Nelson

    2010-01-01

    Reactome (http://www.reactome.org) is a collaboration among groups at the Ontario Institute for Cancer Research, Cold Spring Harbor Laboratory, New York University School of Medicine and The European Bioinformatics Institute, to develop an open source curated bioinformatics database of human pathways and reactions. Recently, we developed a new web site with improved tools for pathway browsing and data analysis. The Pathway Browser is an Systems Biology Graphical Notation (SBGN)-based visualiz...

  7. Important update of CERN Mail Services

    CERN Document Server

    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...

  8. 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 ...

  9. Updated opal opacities

    International Nuclear Information System (INIS)

    The reexamination of astrophysical opacities has eliminated gross discrepancies between a variety of observations and theoretical calculations; thus allowing for more detailed tests of stellar models. A number of such studies indicate that model results are sensitive to modest changes in the opacity. Consequently, it is desirable to update available opacity databases with recent improvements in physics, refinements of element abundance, and other such factors affecting the results. Updated OPAL Rosseland mean opacities are presented. The new results have incorporated improvements in the physics and numerical procedures as well as corrections. The main opacity changes are increases of as much as 20% for Population I stars due to the explicit inclusion of 19 metals (compared to 12 metals in the earlier calculations) with the other modifications introducing opacity changes smaller than 10%. In addition, the temperature and density range covered by the updated opacity tables has been extended. As before, the tables allow accurate interpolation in density and temperature as well as hydrogen, helium, carbon, oxygen, and metal mass fractions. Although a specific metal composition is emphasized, opacity tables for different metal distributions can be made readily available. The updated opacities are compared to other work. copyright 1996 The American Astronomical Society

  10. The Saccharomyces Genome Database: Exploring Genome Features and Their Annotations.

    Science.gov (United States)

    Cherry, J Michael

    2015-12-01

    Genomic-scale assays result in data that provide information over the entire genome. Such base pair resolution data cannot be summarized easily except via a graphical viewer. A genome browser is a tool that displays genomic data and experimental results as horizontal tracks. Genome browsers allow searches for a chromosomal coordinate or a feature, such as a gene name, but they do not allow searches by function or upstream binding site. Entry into a genome browser requires that you identify the gene name or chromosomal coordinates for a region of interest. A track provides a representation for genomic results and is displayed as a row of data shown as line segments to indicate regions of the chromosome with a feature. Another type of track presents a graph or wiggle plot that indicates the processed signal intensity computed for a particular experiment or set of experiments. Wiggle plots are typical for genomic assays such as the various next-generation sequencing methods (e.g., chromatin immunoprecipitation [ChIP]-seq or RNA-seq), where it represents a peak of DNA binding, histone modification, or the mapping of an RNA sequence. Here we explore the browser that has been built into the Saccharomyces Genome Database (SGD). PMID:26631126

  11. A browser-based multi-user working environment for physicists

    International Nuclear Information System (INIS)

    Many programs in experimental particle physics do not yet have a graphical interface, or demand strong platform and software requirements. With the most recent development of the VISPA project, we provide graphical interfaces to existing software programs and access to multiple computing clusters through standard web browsers. The scalable clientserver system allows analyses to be performed in sizable teams, and disburdens the individual physicist from installing and maintaining a software environment. The VISPA graphical interfaces are implemented in HTML, JavaScript and extensions to the Python webserver. The webserver uses SSH and RPC to access user data, code and processes on remote sites. As example applications we present graphical interfaces for steering the reconstruction framework OFFLINE of the Pierre-Auger experiment, and the analysis development toolkit PXL. The browser based VISPA system was field-tested in biweekly homework of a third year physics course by more than 100 students. We discuss the system deployment and the evaluation by the students.

  12. A Browser-Based Multi-User Working Environment for Physicists

    Science.gov (United States)

    Erdmann, M.; Fischer, R.; Glaser, C.; Klingebiel, D.; Komm, M.; Müller, G.; Rieger, M.; Steggemann, J.; Urban, M.; Winchen, T.

    2014-06-01

    Many programs in experimental particle physics do not yet have a graphical interface, or demand strong platform and software requirements. With the most recent development of the VISPA project, we provide graphical interfaces to existing software programs and access to multiple computing clusters through standard web browsers. The scalable clientserver system allows analyses to be performed in sizable teams, and disburdens the individual physicist from installing and maintaining a software environment. The VISPA graphical interfaces are implemented in HTML, JavaScript and extensions to the Python webserver. The webserver uses SSH and RPC to access user data, code and processes on remote sites. As example applications we present graphical interfaces for steering the reconstruction framework OFFLINE of the Pierre-Auger experiment, and the analysis development toolkit PXL. The browser based VISPA system was field-tested in biweekly homework of a third year physics course by more than 100 students. We discuss the system deployment and the evaluation by the students.

  13. Integration of a browser based operator manual in the system environment of a process computer system

    International Nuclear Information System (INIS)

    The integration of a browser based operator manual in the system environment of a process computer system is an optimization of the operating procedure in the control room and a safety enhancement due to faster and error-free access to the manual contents. Several requirements by the authorities have to be fulfilled: the operating manual has to be available as hard copy, the format has to be true to original, protection against manipulation has to be provided, the manual content of the browser-based version and the hard copy have to identical, and the display presentation has to be consistent with ergonomic principals. The integration of the on-line manual in the surveillance process computer system provides the operator with the relevant comments to the surveillance signal. The described integration of the on-line manual is an optimization of the operator's everyday job with respect to ergonomics and safety (human performance).

  14. Web Browser Personalisation Design of a Client Side Web-page Access Prediction Mechanism

    Directory of Open Access Journals (Sweden)

    Mangesh V. Bedekar

    2010-07-01

    Full Text Available Web usage prediction has become a widely addressed topic with the huge proliferation of World Wide Web and computers. Most of the work done in this area of research is centered around prediction of what links the user is expected to visit next given his usage history, making suggestions for new web-sites he may be interested in and the like. We propose two algorithms to make browsers intelligent enough to gauge usage patterns. This algorithms are a blend of statistical and fuzzy logic techniques to gauge the surfing pattern of users, hence intelligently predicting the time ranges of likely user hits forparticular websites, speeding up the browsing experience by means of caching and preloading of predicted websites. Thus our design intends to make the browsers intelligent to speed up and better organize the browsing experience.

  15. Living City, a Collaborative Browser-based Massively Multiplayer Online Game

    CERN Document Server

    Ferrara, Emilio; Pagano, Francesco; 10.4108/ICST.SIMUTOOLS2010.8730

    2010-01-01

    This work presents the design and implementation of our Browser-based Massively Multiplayer Online Game, Living City, a simulation game fully developed at the University of Messina. Living City is a persistent and real-time digital world, running in the Web browser environment and accessible from users without any client-side installation. Today Massively Multiplayer Online Games attract the attention of Computer Scientists both for their architectural peculiarity and the close interconnection with the social network phenomenon. We will cover these two aspects paying particular attention to some aspects of the project: game balancing (e.g. algorithms behind time and money balancing); business logic (e.g., handling concurrency, cheating avoidance and availability) and, finally, social and psychological aspects involved in the collaboration of players, analyzing their activities and interconnections.

  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. Cybersecurity Update

    CERN Document Server

    Heagerty, Denise

    2008-01-01

    An update on recent security issues and vulnerabilities affecting Windows, Linux and Mac platforms. This talk is based on contributions and input from a range of colleagues both within and outside CERN. It covers clients, servers and control systems.

  18. Email Updates

    Science.gov (United States)

    ... https://www.nlm.nih.gov/medlineplus/listserv.html Email Updates To use the sharing features on this ... view your email history or unsubscribe. Prevent MedlinePlus emails from being marked as "spam" or "junk" To ...

  19. 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...

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

    OpenAIRE

    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 addresses the effects of the uptake of strong privacy technologies by pirates on copyright enforcement, on the free speech and on the privacy technology domains. It then analyzes the norms and values refl...

  1. Enforcing User-Aware Browser-Based Mutual Authentication with Strong Locked Same Origin Policy

    OpenAIRE

    Gajek, S; Manulis, M.; Schwenk, J.

    2008-01-01

    The standard solution for mutual authentication between human users and servers on the Internet is to execute a TLS handshake during which the server authenticates using a X.509 certificate followed by the authentication of the user either with own password or with some cookie stored within the user’s browser. Unfortunately, this solution is susceptible to various impersonation attacks such as phishing as it turned out that average Internet users are unable to authenticate servers based on th...

  2. Evaluating Web browser graphics rendering system performance by using dynamically generated SVG

    OpenAIRE

    Gojko Vladić; Neda Milić; Željko Zeljković; Darko Avramović

    2012-01-01

    This paper evaluates common web browsers graphics rendering system performance by using SVG on Windowsplatform. Performance was measured using two extreme case applications: application which generates simple SVGobjects (called “simple application”) and application which generates complex SVG objects (called “complex application”)based on random data often used for science purposes. Both simple and complex applications were hostedon local web server. Performance tests were performed using ded...

  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. Audio-Haptic Internet Browser and Associated Tools for Blind Users and Visually Impaired Computer Users

    OpenAIRE

    Roth, Patrick; Petrucci, Lori Stefano; Assimacopoulos, André; Pun, Thierry

    2000-01-01

    In the Internet world, the widespread use of graphical user interfaces (GUIs) increasingly bars visually handicapped people from accessing digital information. In this context our project aims at providing sight handicapped people with alternative access modalities to various types of GUIs and graphic intensive programs, in order for instance to facilitate usage of Web services. We describe in this paper AB-Web, a 3D-audio Web browser that allows blind computer users to explore Web pages, fil...

  5. Reliability of SNOMED-CT Coding by Three Physicians using Two Terminology Browsers

    OpenAIRE

    Chiang, Michael F.; Hwang, John C.; Yu, Alexander C.; Casper, Daniel S.; Cimino, James J.; Starren, Justin

    2006-01-01

    SNOMED-CT has been promoted as a reference terminology for electronic health record (EHR) systems. Many important EHR functions are based on the assumption that medical concepts will be coded consistently by different users. This study is designed to measure agreement among three physicians using two SNOMED-CT terminology browsers to encode 242 concepts from five ophthalmology case presentations in a publicly-available clinical journal. Inter-coder reliability, based on exact coding match by ...

  6. Are SNOMED CT Browsers Ready for Institutions? Introducing MySNOM

    CERN Document Server

    Lopez-Garcia, Pablo

    2010-01-01

    SNOMED Clinical Terms (SNOMED CT) is one of the most widespread ontologies in the life sciences, with more than 300,000 concepts and relationships, but is distributed with no associated software tools. In this paper we present MySNOM, a web-based SNOMED CT browser. MySNOM allows organizations to browse their own distribution of SNOMED CT under a controlled environment, focuses on navigating using the structure of SNOMED CT, and has diagramming capabilities.

  7. 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).

  8. plas.io: Open Source, Browser-based WebGL Point Cloud Visualization

    Science.gov (United States)

    Butler, H.; Finnegan, D. C.; Gadomski, P. J.; Verma, U. K.

    2014-12-01

    Point cloud data, in the form of Light Detection and Ranging (LiDAR), RADAR, or semi-global matching (SGM) image processing, are rapidly becoming a foundational data type to quantify and characterize geospatial processes. Visualization of these data, due to overall volume and irregular arrangement, is often difficult. Technological advancement in web browsers, in the form of WebGL and HTML5, have made interactivity and visualization capabilities ubiquitously available which once only existed in desktop software. plas.io is an open source JavaScript application that provides point cloud visualization, exploitation, and compression features in a web-browser platform, reducing the reliance for client-based desktop applications. The wide reach of WebGL and browser-based technologies mean plas.io's capabilities can be delivered to a diverse list of devices -- from phones and tablets to high-end workstations -- with very little custom software development. These properties make plas.io an ideal open platform for researchers and software developers to communicate visualizations of complex and rich point cloud data to devices to which everyone has easy access.

  9. 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.

  10. 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.

  11. 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

  12. 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.

  13. Database Description - Gene Name Thesaurus | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ation Database maintenance site The Database Center for Life Science URL of the original website http://life...[ Credits ] BLAST Search Image Search Home About Archive Update History Contact us Gene Name The...saurus Database Description General information of database Database name Gene Name Thesaurus A...lternative name - Creator Creator Name: Kousaku Okubo* Creator Affiliation: The Database Center for Life Sci...formation and Systems Faculty of Engineering Bldg.12 The University Of Tokyo 2-11-16 Yayoi, Bunkyo-ku, Tokyo

  14. Seeing Things Your Way: Information Visualization for a User-Centered Database of Computer Science Literature

    OpenAIRE

    Nowell, Lucy Terry; Edward A Fox; Heath, Lenwood S.; Hix, Deborah; Wake, William C.; Labow, Eric D.

    1994-01-01

    Project Envision is a user-centered multimedia database of computer science literature. Envision features powerful information visualization by displaying search results as a matrix of icons, with layout semantics under user control. Its Graphic View interacts with Item Summary and Preview Item windows to give users access to bibliographic information and abstracts. The concepts underlying these windows are being extended to a Graphical Browser for the full database and for hierarchical st...

  15. 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…

  16. Maize databases

    Science.gov (United States)

    This chapter is a succinct overview of maize data held in the species-specific database MaizeGDB (the Maize Genomics and Genetics Database), and selected multi-species data repositories, such as Gramene/Ensembl Plants, Phytozome, UniProt and the National Center for Biotechnology Information (NCBI), ...

  17. Image File - 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 ...d - Number of data entries 35 entries - Joomla SEF URLs by Artio About This Database Database Description Download License Update His...tory of This Database Site Policy | Contact Us Image File - TP Atlas | LSDB Archive ...

  18. Genotype 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 ...URL: ftp://ftp.biosciencedbc.jp/archive/rgp-gmap98/LATEST/rgp_gmap98_genotype_dat...his Database Database Description Download License Update History of This Database Site Policy | Contact Us Genotype data - RGP gmap98 | LSDB Archive ...

  19. The international global H-mode confinement database: storage and distribution

    International Nuclear Information System (INIS)

    The international global H-mode confinement database is now available in a commercially based relational database environment. Everyone with access to the Internet can query the public database with a Web browser. The open data base connectivity properties of the new environment makes it possible to exchange data without any manual data transformations. Previously, the database was only available in a simple text file format and all exchanges of data were done via file transfers using this file format. The technical details of both the old and new set-up are described in the paper since the old one is still in use

  20. 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.

  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. 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

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

  4. PIR 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 ... Download License Update History of This Database Site Policy | Contact Us PIR search result - KOME | LSDB Archive ...

  5. 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 ...

  6. 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 ...

  7. Organ 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...load License Update History of This Database Site Policy | Contact Us Organ weight - Open TG-GATEs | LSDB Archive ...

  8. Cell sample - 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...ase Description Download License Update History of This Database Site Policy | Contact Us Cell sample - Open TG-GATEs | LSDB Archive ...

  9. 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 ...

  10. 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 ...

  11. 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...

  12. 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...

  13. The Nuclear Science References Database

    CERN Document Server

    Pritychenko, B; Singh, B; Totans, J

    2013-01-01

    The Nuclear Science References (NSR) database together with its associated Web interface, is the world's only comprehensive source of easily accessible low- and intermediate-energy nuclear physics bibliographic information for more than 210,000 articles since the beginning of nuclear science. The weekly-updated NSR database provides essential support for nuclear data evaluation, compilation and research activities. The principles of the database and Web application development and maintenance are described. Examples of nuclear structure, reaction and decay applications are specifically included. The complete NSR database is freely available at the websites of the National Nuclear Data Center http://www.nndc.bnl.gov/nsr and the International Atomic Energy Agency http://www-nds.iaea.org/nsr.

  14. Update '98.

    Science.gov (United States)

    Mock, Karen R.

    1998-01-01

    Updates cases and issues previously discussed in this regular column on human rights in Canada, including racism and anti-Semitism, laws on hate crimes, hate sites on the World Wide Web, the use of the "free speech" defense by hate groups, and legal challenges to antiracist groups by individuals criticized by them. (DSK)

  15. Analysis of XSS attack Mitigation techniques based on Platforms and Browsers

    Directory of Open Access Journals (Sweden)

    Ravi Kanth Kotha

    2012-05-01

    Full Text Available In the recent years, everything is in web. It may be Organization’s administration software, Custom ERP application, Employee portals or Real estate portals. The Social networking sites like Face book, Twitter, MySpace which is a web application is been used by millions of users around the world. So web applications have become very popular among users. Hence they are observed and may be exploited by hackers. Researchers and industry experts state that the Cross-site Scripting (XSS is the one of the top most vulnerabilities in the web application. The cross-site scripting has become a common vulnerability of many web sites and web applications. XSS consists in the exploitation of input validation flaws, with the purpose of injecting arbitrary script code which is later executed at the web browser of the victim. According to OSWAP, Cross-site scripting attacks on web applications have experienced an important rise in recent year. This demands an efficient approach on the server side to protect the users of the application as the reason for the vulnerability primarily lies on the server side. The actual exploitation is within the victim’s web browser on the client-side. Therefore, an operator of a web application has only very limited evidence of XSS issues. However, there are many solutions for this vulnerability. But such techniques may degrade the performance of the system. In such scenarios challenge is to decide which method, platform, browser and middleware can be used to overcome the vulnerabilities, with reasonable performance over head to the system.

  16. Visualizing Earthquakes in '3D' using the IRIS Earthquake Browser (IEB) Website

    Science.gov (United States)

    Welti, R.; McQuillan, P. J.; Weertman, B. R.

    2012-12-01

    The distribution of earthquakes is often easier to interpret in 3D, but most 3D visualization tools require the installation of specialized software and some practice in their use. To reduce this barrier for students and the general public, a pseudo-3D seismicity viewer has been developed which runs in a web browser as part of the IRIS Earthquake Browser (IEB). IEB is an interactive map for viewing earthquake epicenters all over the world, and is composed of a Google map, HTML, JavaScript and a fast earthquake hypocenter web service. The web service accesses seismic data at IRIS from the early 1960s until present. Users can change the region, the number of events, and the depth and magnitude ranges to display. Earthquakes may also be viewed as a table, or exported to various formats. Predefined regions can be selected and zoomed to, and bookmarks generally preserve whatever region and settings are in effect when bookmarked, allowing the easy sharing of particular "scenarios" with other users. Plate boundaries can be added to the display. The 3DV viewer displays events for the currently-selected IEB region in a separate window. They can be rotated and zoomed, with a fast response for plots of up to several thousand events. Rotation can be done manually by dragging or automatically at a set rate, and tectonic plate boundaries turned on or off. 3DV uses a geographical projection algorithm provided by Gary Pavils and collaborators. It is written in HTML5, and is based on CanvasMol by Branislav Ulicny.; A region SE of Fiji, selected in IRIS Earthquake Browser. ; The same region as viewed in 3D Viewer.

  17. 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....

  18. Development of web database system for JAERI ERL-FEL

    International Nuclear Information System (INIS)

    The accelerator control system for the JAERI ERL-FEL is a PC-based distributed control system. The accelerator status record is stored automatically through the control system to analyze the influence on the electron beam. In order to handle effectively a large number of stored data, it is necessary that the required data can be searched and visualized in easy operation. For this reason, a web database (DB) system which can search of the required data and display visually on a web browser was developed by using open source software. With introduction of this system, accelerator operators can monitor real-time information anytime, anywhere through a web browser. Development of the web DB system is described in this paper. (author)

  19. Performance of WebGL on mobile browsers in the context of videogames

    OpenAIRE

    Denti, Mattia

    2015-01-01

    The market for mobile games has been growing in the past years, but the performance of 3D applications on mobile devices is still lacking. Additionally, 3D graphics are also becoming more popular on mobile games, and the quality and smoothness of the game-play experience is becoming a big concern. With the new WebGL specification the browser also becomes a viable platform for mobile gaming, but few studies approach the subject from a scientific point of view. This paper studies th...

  20. How users interact with a 3D geo-browser under time pressure

    OpenAIRE

    Wilkening, Jan; Fabrikant, Sara I

    2013-01-01

    Interactive 3D geo-browsers, also known as globe viewers, are popular, because they are easy and fun to use. However, it is still an open question whether highly interactive, 3D geographic data browsing, and visualization displays support effective and efficient spatio-temporal decision making. Moreover, little is known about the role of time constraints for spatio-temporal decision-making in an interactive, 3D context. In this article, we present an empirical approach to assess the effect of...

  1. 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

  2. Database Description - 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 TM...BETA-GENOME Database Description General information of database Database name TMBETA-GENOME Alternative n...Advanced Industrial Science and Technology Contact address Dr. M. MICHAEL GROMIHA Associate Professor Departm...ent of Biotechnology IIT Madras Chennai - 600 036 Tel: +91-44-2257-4138(O) E-mail: http://www.iitm.ac.in/bi...: Eukaryota Taxonomy ID: 2759 Database description TMBETA-GENOME is a database for transmembrane β-barrel pr

  3. Interactive atlas using web browser: CT and MRI of the temporal bone

    International Nuclear Information System (INIS)

    The purposes of this study were to construct an interactive atlas of the temporal bone using a web-browser and to provide a template for web-based teaching files, using free and shared applets and scripts on the internet. HRCT and MR images of the temporal bone including its normal anatomy, tumors, trauma, inflammation, anomalies and vascular diseases were used in this study. Acquired radiologic images were transformed to GIF/JPG formats and to achieve appropriate image quality, were retouched. Text and image files of normal anatomy and diseases were written by HTML. JavaScript and applets were inserted in the HTML files for the interactive display of images and texts. In order to review anatomic features and diseases, a search index was also attached to the last part of the file. Using interactive images and text, temporal bone anatomy and disorders were displayed. Scripts and applets were also useful for indicating specific points of interest when a mouse was placed over the anatomic sites. The atlas may be viewed in the form of a CD-ROM, or via the internet using any computer platform or web-browser. This web-based teaching file of the temporal bone offers dynamic and interactive education. It can be usefully employed as a template for the production of interactive educational materials, offering JavaScript and providing suitable input for classes. It can replace texts and imaging contents. (author)

  4. 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.

  5. gEVAL — a web-based browser for evaluating genome assemblies

    Science.gov (United States)

    Chow, William; Brugger, Kim; Caccamo, Mario; Sealy, Ian; Torrance, James; Howe, Kerstin

    2016-01-01

    Motivation: For most research approaches, genome analyses are dependent on the existence of a high quality genome reference assembly. However, the local accuracy of an assembly remains difficult to assess and improve. The gEVAL browser allows the user to interrogate an assembly in any region of the genome by comparing it to different datasets and evaluating the concordance. These analyses include: a wide variety of sequence alignments, comparative analyses of multiple genome assemblies, and consistency with optical and other physical maps. gEVAL highlights allelic variations, regions of low complexity, abnormal coverage, and potential sequence and assembly errors, and offers strategies for improvement. Although gEVAL focuses primarily on sequence integrity, it can also display arbitrary annotation including from Ensembl or TrackHub sources. We provide gEVAL web sites for many human, mouse, zebrafish and chicken assemblies to support the Genome Reference Consortium, and gEVAL is also downloadable to enable its use for any organism and assembly. Availability and Implementation: Web Browser: http://geval.sanger.ac.uk, Plugin: http://wchow.github.io/wtsi-geval-plugin. Contact: kj2@sanger.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online. PMID:27153597

  6. 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/

  7. 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.

  8. 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.

  9. 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.

  10. WebSound: a generic Web sonification tool, and its application to an auditory Web browser for blind and visually impaired users

    OpenAIRE

    Petrucci, Lori Stefano; Harth, Eric; Roth, Patrick; Assimacopoulos, André; Pun, Thierry

    2000-01-01

    The inherent visual nature of Internet browsers makes the Web inaccessible to the visually impaired. Although several non-visual browsers have been developed, they usually transform the visual content of HTML documents into textual information only, that can be rendered by a text-to-speech converter or a Braille device. The loss of spatial layout and of textual attributes should be avoided since they often bear visually important information. Moreover, typical non-visual Internet browsers do ...

  11. The UMIST database for astrochemistry 2012

    OpenAIRE

    McElroy, D.; Walsh, C; Markwick, A. J.; Cordiner, M. A.; Smith, K; Millar, T. J.

    2012-01-01

    We present the fifth release of the UMIST Database for Astrochemistry (UDfA). The new reaction network contains 6173 gas-phasereactions, involving 467 species, 47 of which are new to this release. We have updated rate coefficients across all reaction types.We have included 1171 new anion reactions and updated and reviewed all photorates. In addition to the usual reaction network, wealso now include, for download, state-specific deuterated rate coefficients, deuterium exchange reactions and a ...

  12. 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.

  13. 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

  14. The New NRL Crystallographic Database

    Science.gov (United States)

    Mehl, Michael; Curtarolo, Stefano; Hicks, David; Toher, Cormac; Levy, Ohad; Hart, Gus

    For many years the Naval Research Laboratory maintained an online graphical database of crystal structures for a wide variety of materials. This database has now been redesigned, updated and integrated with the AFLOW framework for high throughput computational materials discovery (http://materials.duke.edu/aflow.html). For each structure we provide an image showing the atomic positions; the primitive vectors of the lattice and the basis vectors of every atom in the unit cell; the space group and Wyckoff positions; Pearson symbols; common names; and Strukturbericht designations, where available. References for each structure are provided, as well as a Crystallographic Information File (CIF). The database currently includes almost 300 entries and will be continuously updated and expanded. It enables easy search of the various structures based on their underlying symmetries, either by Bravais lattice, Pearson symbol, Strukturbericht designation or commonly used prototypes. The talk will describe the features of the database, and highlight its utility for high throughput computational materials design. Work at NRL is funded by a Contract with the Duke University Department of Mechanical Engineering.

  15. The CHIANTI atomic database

    Science.gov (United States)

    Young, P. R.; Dere, K. P.; Landi, E.; Del Zanna, G.; Mason, H. E.

    2016-04-01

    The freely available CHIANTI atomic database was first released in 1996 and has had a huge impact on the analysis and modeling of emissions from astrophysical plasmas. It contains data and software for modeling optically thin atom and positive ion emission from low density (≲1013 cm-3) plasmas from x-ray to infrared wavelengths. A key feature is that the data are assessed and regularly updated, with version 8 released in 2015. Atomic data for modeling the emissivities of 246 ions and neutrals are contained in CHIANTI, together with data for deriving the ionization fractions of all elements up to zinc. The different types of atomic data are summarized here and their formats discussed. Statistics on the impact of CHIANTI to the astrophysical community are given and examples of the diverse range of applications are presented.

  16. Integration of TGS and CTEN assays using the CTEN{_}FIT analysis and databasing program

    Energy Technology Data Exchange (ETDEWEB)

    Estep, R. [and others

    2000-05-01

    The CTEN{_}FIT program, written for Windows 9x/NT in C++, performs databasing and analysis of combined thermal/epithermal neutron (CTEN) passive and active neutron assay data and integrates that with isotopics results and gamma-ray data from methods such as tomographic gamma scanning (TGS). The binary database is reflected in a companion Excel database that allows extensive customization via Visual Basic for Applications macros. Automated analysis options make the analysis of the data transparent to the assay system operator. Various record browsers and information displays simplified record keeping tasks.

  17. The TriggerTool Graphical User Interface to the ATLAS Trigger Configuration Database

    CERN Document Server

    Bell, P; Brunet, S; Fischer, G; Goebel, M; Haller, J; Head, S; Höcker, A; Kohno, T; Martyniuk, A; Nozicka, M; Owen, M; Spiwoks, R; Stelzer, J; Wengler, T; Wiedenmann, W

    2009-01-01

    A system has been designed and implemented to configure all three levels of the ATLAS trigger system from a centrally provided relational database, in which an archive of all trigger configurations used in data taking is also maintained. The user interaction with this database is via a Java-based graphical user interface known as the TriggerTool. We describe here how the TriggerTool has been designed to fulfill several different roles for users of varying expertise, from being a browser of the database to a tool for creating and modifying configurations

  18. Integration of TGS and CTEN assays using the CTENFIT analysis and databasing program

    International Nuclear Information System (INIS)

    The CTENFIT program, written for Windows 9x/NT in C++, performs databasing and analysis of combined thermal/epithermal neutron (CTEN) passive and active neutron assay data and integrates that with isotopics results and gamma-ray data from methods such as tomographic gamma scanning (TGS). The binary database is reflected in a companion Excel database that allows extensive customization via Visual Basic for Applications macros. Automated analysis options make the analysis of the data transparent to the assay system operator. Various record browsers and information displays simplified record keeping tasks

  19. Literature searches on Ayurveda: An update

    Science.gov (United States)

    Aggithaya, Madhur G.; Narahari, Saravu R.

    2015-01-01

    Introduction: The journals that publish on Ayurveda are increasingly indexed by popular medical databases in recent years. However, many Eastern journals are not indexed biomedical journal databases such as PubMed. Literature searches for Ayurveda continue to be challenging due to the nonavailability of active, unbiased dedicated databases for Ayurvedic literature. In 2010, authors identified 46 databases that can be used for systematic search of Ayurvedic papers and theses. This update reviewed our previous recommendation and identified current and relevant databases. Aims: To update on Ayurveda literature search and strategy to retrieve maximum publications. Methods: Author used psoriasis as an example to search previously listed databases and identify new. The population, intervention, control, and outcome table included keywords related to psoriasis and Ayurvedic terminologies for skin diseases. Current citation update status, search results, and search options of previous databases were assessed. Eight search strategies were developed. Hundred and five journals, both biomedical and Ayurveda, which publish on Ayurveda, were identified. Variability in databases was explored to identify bias in journal citation. Results: Five among 46 databases are now relevant – AYUSH research portal, Annotated Bibliography of Indian Medicine, Digital Helpline for Ayurveda Research Articles (DHARA), PubMed, and Directory of Open Access Journals. Search options in these databases are not uniform, and only PubMed allows complex search strategy. “The Researches in Ayurveda” and “Ayurvedic Research Database” (ARD) are important grey resources for hand searching. About 44/105 (41.5%) journals publishing Ayurvedic studies are not indexed in any database. Only 11/105 (10.4%) exclusive Ayurveda journals are indexed in PubMed. Conclusion: AYUSH research portal and DHARA are two major portals after 2010. It is mandatory to search PubMed and four other databases because all five

  20. Compression Aware Physical Database Design

    CERN Document Server

    Kimura, Hideaki; Syamala, Manoj

    2011-01-01

    Modern RDBMSs support the ability to compress data using methods such as null suppression and dictionary encoding. Data compression offers the promise of significantly reducing storage requirements and improving I/O performance for decision support queries. However, compression can also slow down update and query performance due to the CPU costs of compression and decompression. In this paper, we study how data compression affects choice of appropriate physical database design, such as indexes, for a given workload. We observe that approaches that decouple the decision of whether or not to choose an index from whether or not to compress the index can result in poor solutions. Thus, we focus on the novel problem of integrating compression into physical database design in a scalable manner. We have implemented our techniques by modifying Microsoft SQL Server and the Database Engine Tuning Advisor (DTA) physical design tool. Our techniques are general and are potentially applicable to DBMSs that support other co...

  1. Incremental view materialization in deductive databases

    OpenAIRE

    Wang Chan Wong; L. F. Bic

    2012-01-01

    This paper presents a unifying approach to processing of (recursive) queries and updates in a deductive database. To  improve query performance, a combined top-down and bottom-up evaluation method is used to compile rules into iterative programs that contain relational algebra operators. This method is based  on the lemma resolution that retains previous results to guarantee termination.Due to locality in database processing (i.e. repetitive user query patterns), it is desirable to ...

  2. NUREBASE: database of nuclear hormone receptors

    OpenAIRE

    Duarte, Jorge; Perrière, Guy; Laudet, Vincent; Robinson-Rechavi, Marc

    2002-01-01

    Nuclear hormone receptors are an abundant class of ligand activated transcriptional regulators, found in varying numbers in all animals. Based on our experience of managing the official nomenclature of nuclear receptors, we have developed NUREBASE, a database containing protein and DNA sequences, reviewed protein alignments and phylogenies, taxonomy and annotations for all nuclear receptors. The reviewed NUREBASE is completed by NUREBASE_DAILY, automatically updated every 24 h. Both databases...

  3. 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.

  4. 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).

  5. 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.

  6. 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.

  7. The European Fusion Material properties database

    International Nuclear Information System (INIS)

    Materials research represents a significant part of the European and world effort on fusion research. A European Fusion Materials web-based relational database is being developed to collect, expand and preserve for the future the data produced in support of the NET, DEMO and ITER. The database allows understanding of material properties and their critical parameters for fusion environments. The system uses J2EE technologies and the PostgreSQL relational database, and flexibility ensures that new methods to automate material design for specific applications can be easily implemented. It runs on a web server and allows users access via the Internet using their preferred web browser. The database allows users to store, browse and search raw tests, material properties and qualified data, and electronic reports. For data security, users are issued with individual accounts, and the origin of all requests is checked against a list of trusted sites. Different user accounts have access to different datasets to ensure the data is not shared unintentionally. The system allows several levels of data checking/cleaning and validation. Data insertion is either online or through downloaded templates, and validation is through different expert groups, which can apply different criteria to the data

  8. 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.

  9. STIFDB2: An Updated Version of Plant Stress-Responsive TranscrIption Factor DataBase with Additional Stress Signals, Stress-Responsive Transcription Factor Binding Sites and Stress-Responsive Genes in Arabidopsis and Rice

    OpenAIRE

    Naika, Mahantesha; Shameer, Khader; Mathew, Oommen K; Gowda, Ramanjini; Sowdhamini, Ramanathan

    2013-01-01

    Understanding the principles of abiotic and biotic stress responses, tolerance and adaptation remains important in plant physiology research to develop better varieties of crop plants. Better understanding of plant stress response mechanisms and application of knowledge derived from integrated experimental and bioinformatics approaches are gaining importance. Earlier, we showed that compiling a database of stress-responsive transcription factors and their corresponding target binding sites in...

  10. Extracting Schema from an OEM Database

    Institute of Scientific and Technical Information of China (English)

    沈一栋

    1998-01-01

    While the schema-less feature of the OEM(Object Exchange Modl)gives flexibility in representing semi-structured data,it brings difficulty in formulating database queries. Extracting schema from an OEM database then becomes an important research topic.This paper presents a new approach to this topic with th following reatures.(1)In addition to representing th nested label structure of an OEM database,the proposed OEM schema keeps up-tp-date information about instance objects of the database,The object-level information is useful in speeding up query evaluation.(2)The OEM schema is explicitly represented as a label-set,which is easy to construct and update.(3)The OEM schema of a database is statically built and dynamically updated.The time complexity of building the OEM schems is linear in the size of the OEM database.(4)The approach is applicable to a wide range of areas where the underlying schema is much smaller than the database itself(e.g.data warehouses that are made from a set of heterogeneous databases).

  11. 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 ...

  12. The geospatial web how geo-browsers, social software and the web 2.0 are shaping the network society

    CERN Document Server

    Scharl, Arno

    2009-01-01

    The Geospatial Web will have a profound impact on managing knowledge, structuring work flows within and across organizations. The enabling technologies for the Geospatial Web are geo-browsers such as NASA World Wind, Google Earth and Microsoft Live Local 3D. This book summarizes research on the Geospatial Web's technical foundations.

  13. Database resources of the National Center for Biotechnology Information

    OpenAIRE

    . .

    2012-01-01

    In addition to maintaining the GenBank® nucleic acid sequence database, the National Center for Biotechnology Information (NCBI, http://www.ncbi.nlm.nih.gov) provides analysis and retrieval resources for the data in GenBank and other biological data made available through the NCBI web site. NCBI resources include Entrez, the Entrez Programming Utilities, MyNCBI, PubMed, PubMed Central, Gene, the NCBI Taxonomy Browser, BLAST, BLAST Link (BLink), Primer-BLAST, COBALT, Splign, RefSeq, UniGene, H...

  14. Database resources of the National Center for Biotechnology

    OpenAIRE

    Wheeler, David L.; Church, Deanna M.; Federhen, Scott; Lash, Alex E.; Madden, Thomas L.; Pontius, Joan U.; Schuler, Gregory D.; Schriml, Lynn M; Sequeira, Edwin; Tatusova, Tatiana A.; Wagner, Lukas

    2003-01-01

    In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources for the data in GenBank and other biological data made available through NCBI's Web site. NCBI resources include Entrez, PubMed, PubMed Central (PMC), LocusLink, the NCBITaxonomy Browser, BLAST, BLAST Link (BLink), Electronic PCR (e-PCR), Open Reading Frame (ORF) Finder, References Sequence (RefSeq), UniGene, HomoloGe...

  15. Scriptable access to the Caenorhabditis elegans genome sequence and other ACEDB databases.

    Science.gov (United States)

    Stein, L D; Thierry-Mieg, J

    1998-12-01

    Much of the world's genomic data are available to the community through networked databases that are accessed via Web interfaces. Although this paradigm provides browse-level access and has greatly facilitated linking between databases, it does not provide any convenient mechanism for programmatically fetching and integrating data from diverse databases. We have created a library and an application programming interface (API) named AcePerl that provides simple, direct access to ACEDB databases from the Perl programming language. With this library, programmers and computer-savvy biologists can write software to pose complex queries on local and remote ACEDB databases, retrieve the data, integrate the results, and move data objects from one database to another. In addition, a set of Web scripts running on top of AcePerl provides Web-based browsing of any local or remote ACEDB database. AcePerl and the AceBrowser Web browser run on Unix systems and are available under a license that allows for unrestricted use and redistribution. Both packages can be downloaded from URL. A Microsoft Windows port of AcePerl is in the planning stages. PMID:9872985

  16. A KML-BASED APPROACH FOR DISTRIBUTED COLLABORATIVE INTERPRETATION OF REMOTE SENSING IMAGES IN THE GEO-BROWSER

    Directory of Open Access Journals (Sweden)

    L. Huang

    2012-07-01

    Full Text Available Existing implementations of collaborative image interpretation have many limitations for very large satellite imageries, such as inefficient browsing, slow transmission, etc. This article presents a KML-based approach to support distributed, real-time, synchronous collaborative interpretation for remote sensing images in the geo-browser. As an OGC standard, KML (Keyhole Markup Language has the advantage of organizing various types of geospatial data (including image, annotation, geometry, etc. in the geo-browser. Existing KML elements can be used to describe simple interpretation results indicated by vector symbols. To enlarge its application, this article expands KML elements to describe some complex image processing operations, including band combination, grey transformation, geometric correction, etc. Improved KML is employed to describe and share interpretation operations and results among interpreters. Further, this article develops some collaboration related services that are collaboration launch service, perceiving service and communication service. The launch service creates a collaborative interpretation task and provides a unified interface for all participants. The perceiving service supports interpreters to share collaboration awareness. Communication service provides interpreters with written words communication. Finally, the GeoGlobe geo-browser (an extensible and flexible geospatial platform developed in LIESMARS is selected to perform experiments of collaborative image interpretation. The geo-browser, which manage and visualize massive geospatial information, can provide distributed users with quick browsing and transmission. Meanwhile in the geo-browser, GIS data (for example DEM, DTM, thematic map and etc. can be integrated to assist in improving accuracy of interpretation. Results show that the proposed method is available to support distributed collaborative interpretation of remote sensing image

  17. Distributed computing support program`s databases

    Energy Technology Data Exchange (ETDEWEB)

    Parsons, Amy [Saint Cloud State Univ., MN (United States)

    1996-05-01

    The Distributed Computing Support Program (DCSP) is the current system for keeping track of computer hardware maintenance throughout the Lawrence Livermore National Laboratory. DCSP consists of four separate Ingres databases each with their own support files. The process of updating and revising the support files, to make the business process more efficient is described in this paper.

  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...

  19. Research and application of ORACLE performance optimizing technologies for building airplane environment resource database

    Science.gov (United States)

    Zhang, Jianjun; Sun, Jianyong; Cheng, Conggao

    2013-03-01

    Many problems exist in processing experimental aircraft vibration (temperature, humidity) data and generating the intermediate calculations during the construction of airplane environment resource database, such as the need to deal with both structural and non-structural data, weak capacity of the client browser for data processing and massive network data transferring etc. To solve the above problems, some strategies on tuning and optimization performance of database are employed base on Oracle11g, which include data storage structure tuning, the memory configuration of the server, the disk I/O tuning and SQL statement tuning. The experimental results show that the performance of airplane environment resource database is enhanced about 80% compared with the database developed in the initial demonstration and validation phase. The application of new optimization strategies to the database construction can lay a sound foundation for finishing building airplane environment resource database.

  20. 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