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MetaBase--the wiki-database of biological databases.

Nucleic acids research | Jan 23, 2012

Biology is generating more data than ever. As a result, there is an ever increasing number of publicly available databases that analyse, integrate and summarize the available data, providing an invaluable resource for the biological community. As this trend continues, there is a pressing need to organize, catalogue and rate these resources, so that the information they contain can be most effectively exploited. MetaBase (MB) (http://MetaDatabase.Org) is a community-curated database containing more than 2000 commonly used biological databases. Each entry is structured using templates and can carry various user comments and annotations. Entries can be searched, listed, browsed or queried. The database was created using the same MediaWiki technology that powers Wikipedia, allowing users to contribute on many different levels. The initial release of MB was derived from the content of the 2007 Nucleic Acids Research (NAR) Database Issue. Since then, approximately 100 databases have been manually collected from the literature, and users have added information for over 240 databases. MB is synchronized annually with the static Molecular Biology Database Collection provided by NAR. To date, there have been 19 significant contributors to the project; each one is listed as an author here to highlight the community aspect of the project.

Pubmed ID: 22139927 RIS Download

Mesh terms: Biology | Databases, Factual | Internet | Systems Integration

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GTEx eQTL Browser

Database and browser that provides a central resource to archive and display association between genetic variation and high-throughput molecular-level phenotypes. This effort originated with the NIH GTEx roadmap project: however the scope of this resource will be extended to include any available genotype/molecular phenotype datasets.

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University of Pittsburgh Bioinformatics Resources Collection

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. To bridge the gap between the rising information needs of biological and medical researchers and the rapidly growing number of online bioinformatics resources we have created the Online Bioinformatics Resources Collection (OBRC) at the Health Sciences Library System at the University of Pittsburgh. The OBRC containing 1542 major online bioinformatics databases and software tools was constructed using the HSLS content management system built on the Zope? Web application server. To enhance the output of search results we further implemented the Vivsimo Clustering Engine? which automatically organizes the search results into categories created dynamically based on the textual information of the retrieved records. As the largest online collection of its kind and the only one with advanced search results clustering OBRC is aimed at becoming a one-stop guided information gateway to the major bioinformatics databases and software tools on the Web. OBRC is available at the University of Pittsburgh's Health Sciences Library System.

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