BioModels linked dataset

BMC Systems Biology

Camille Laibe³  Nicolas Le Novère¹  Henning Hermjakob³  Pierre Grenon²  Sarala M Wimalaratne³ 

[1] Babraham Institute, Babraham Research Campus, Cambridge CB22 3AT, UK;CHIME, The Farr Institute of Health Informatics Research, London NW1 2DA, UK;European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK

关键词: SPARQL;    Linked data;    Resource description framework;    Semantic web;    BioModels database;   

Others  :  1159573
DOI  :  10.1186/s12918-014-0091-5

 received in 2014-05-06, accepted in 2014-07-18,  发布年份 2014

【 摘 要 】

Background

BioModels Database is a reference repository of mathematical models used in biology. Models are stored as SBML files on a file system and metadata is provided in a relational database. Models can be retrieved through a web interface and programmatically via web services. In addition to those more traditional ways to access information, Linked Data using Semantic Web technologies (such as the Resource Description Framework, RDF), is becoming an increasingly popular means to describe and expose biological relevant data.

Results

We present the BioModels Linked Dataset, which exposes the models’ content as a dereferencable interlinked dataset. BioModels Linked Dataset makes use of the wealth of annotations available within a large number of manually curated models to link and integrate data and models from other resources.

Conclusions

The BioModels Linked Dataset provides users with a dataset interoperable with other semantic web resources. It supports powerful search queries, some of which were not previously available to users and allow integration of data from multiple resources. This provides a distributed platform to find similar models for comparison, processing and enrichment.

【 授权许可】

   
2014 Wimalaratne et al.; licensee BioMed Central

【 图 表 】

Figure 1.

Figure 2.

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