Finding and sharing: new approaches to registries of databases and services for the biomedical sciences.

Database : the Journal of Biological Databases and Curation
Damian SmedleyJohn M Hancock

Abstract

The recent explosion of biological data and the concomitant proliferation of distributed databases make it challenging for biologists and bioinformaticians to discover the best data resources for their needs, and the most efficient way to access and use them. Despite a rapid acceleration in uptake of syntactic and semantic standards for interoperability, it is still difficult for users to find which databases support the standards and interfaces that they need. To solve these problems, several groups are developing registries of databases that capture key metadata describing the biological scope, utility, accessibility, ease-of-use and existence of web services allowing interoperability between resources. Here, we describe some of these initiatives including a novel formalism, the Database Description Framework, for describing database operations and functionality and encouraging good database practise. We expect such approaches will result in improved discovery, uptake and utilization of data resources. Database URL: http://www.casimir.org.uk/casimir_ddf.

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Jul 16, 2010·Database : the Journal of Biological Databases and Curation·Michael ZouberakisVassilis Aidinis

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Citations

Jan 6, 2011·Database : the Journal of Biological Databases and Curation·Pascale GaudetUNKNOWN BioDBCore Working Group
Jun 26, 2012·Database : the Journal of Biological Databases and Curation·Christina ChandrasVassilis Aidinis
Nov 26, 2010·Nucleic Acids Research·Pascale GaudetUNKNOWN BioDBCore Working Group
Sep 4, 2014·Interdisciplinary Sciences, Computational Life Sciences·Ajay Shiv SharmaRajendra Prasad
Aug 25, 2015·Interdisciplinary Sciences, Computational Life Sciences·Ajay Shiv SharmaRajendra Prasad
Apr 14, 2016·Evidence-based Complementary and Alternative Medicine : ECAM·Yuan LiYan Chai
Feb 27, 2016·Human Mutation·Mauno VihinenPeter Taschner
Oct 1, 2015·Briefings in Bioinformatics·Anika OellrichMichel Dumontier

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Software Mentioned

MRB
FASTA
CASIMIR
caBIG
soaplab
ENFIN
FUGE
Taverna
DDF
Drupal

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