Provider:
BridgeDb
Location:
Santa Barbara, UNITED STATES
Submitter / Source:
Martijn van Iersel (9 months ago)
Base URL:
http://webservice.bridgedb.org
Documentation URL(s): Martijn van Iersel (9 months ago)http://www.bridgedb.org
Login to add a documentation URL Description(s): Martijn van Iersel (9 months ago)Identifier mapping service for genes and proteins from multiple species, and for metabolites. Can translate single identifiers, batches of identifiers, look up common names and do a free text search.
See also http://www.biomedcentral.com/1471-2105/11/5
Login to add a description License(s): None Login to add license info Cost: No info yet Login to add cost info Usage Conditions: No info yet Login to add usage conditions info Contact Info: Martijn van Iersel (9 months ago)Contact us at bridgedb-discuss@googlegroups.com
Login to add contact info Publications: for this service. This can be a URI to the publication and/or a DOI. Martijn van Iersel (9 months ago)http://www.biomedcentral.com/1471-2105/11/5
Login to add publication info Citations: Martijn van Iersel (9 months ago)@Article{20047655,
AUTHOR = {van Iersel, Martijn and Pico, Alexander and Kelder, Thomas and Gao, Jianjiong and Ho, Isaac and Hanspers, Kristina and Conklin, Bruce and Evelo, Chris},
TITLE = {The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services},
JOURNAL = {BMC Bioinformatics},
VOLUME = {11},
YEAR = {2010},
NUMBER = {1},
PAGES = {5},
URL = {http://www.biomedcentral.com/1471-2105/11/5},
DOI = {10.1186/1471-2105-11-5},
PubMedID = {20047655},
ISSN = {1471-2105},
ABSTRACT = {BACKGROUND:Many complementary solutions are available for the identifier mapping problem. This creates an opportunity for bioinformatics tool developers. Tools can be made to flexibly support multiple mapping services or mapping services could be combined to get broader coverage. This approach requires an interface layer between tools and mapping services.RESULTS:Here we present BridgeDb, a software framework for gene, protein and metabolite identifier mapping. This framework provides a standardized interface layer through which bioinformatics tools can be connected to different identifier mapping services. This approach makes it easier for tool developers to support identifier mapping. Mapping services can be combined or merged to support multi-omics experiments or to integrate custom microarray annotations. BridgeDb provides its own ready-to-go mapping services, both in webservice and local database forms. However, the framework is intended for customization and adaptation to any identifier mapping service. BridgeDb has already been integrated into several bioinformatics applications.CONCLUSION:By uncoupling bioinformatics tools from mapping services, BridgeDb improves capability and flexibility of those tools. All described software is open source and available at http://www.bridgedb.org.},
}