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. 2014 Jan;42(Database issue):D50-2.
doi: 10.1093/nar/gkt1081. Epub 2013 Nov 21.

Updates to BioSamples database at European Bioinformatics Institute

Adam Faulconbridge  1 , Tony Burdett, Marco Brandizi, Mikhail Gostev, Rui Pereira, Drashtti Vasant, Ugis Sarkans, Alvis Brazma, Helen Parkinson
Affiliations

Updates to BioSamples database at European Bioinformatics Institute

Adam Faulconbridge et al. Nucleic Acids Res. 2014 Jan.

Abstract

The BioSamples database at the EBI (http://www.ebi.ac.uk/biosamples) provides an integration point for BioSamples information between technology specific databases at the EBI, projects such as ENCODE and reference collections such as cell lines. The database delivers a unified query interface and API to query sample information across EBI's databases and provides links back to assay databases. Sample groups are used to manage related samples, e.g. those from an experimental submission, or a single reference collection. Infrastructural improvements include a new user interface with ontological and key word queries, a new query API, a new data submission API, complete RDF data download and a supporting SPARQL endpoint, accessioning at the point of submission to the European Nucleotide Archive and European Genotype Phenotype Archives and improved query response times.

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Figures

Figure 1.
Figure 1.
The new BioSamples web interface showing search results for a query of ‘acute myeloid leukemia’. Auto-complete on the search box suggests appropriate ontology and keyword terms as the query is entered by the user, including more specific terms from EFO such as subtypes of the disease. Highlighted results are colour coded for clarity; exact matches (yellow), synonyms (green) and more specific terms (red).
See this image and copyright information in PMC

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