Identifiers.org

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Identifiers.org is a project providing stable and perennial identifiers for data records used in the Life Sciences. The identifiers are provided in the form of

Uniform Resource Identifiers (URIs). Identifiers.org is also a resolving system, that relies on collections listed in the MIRIAM Registry
to provide direct access to different instances of the identified records.

Identifiers.org URIs and resolving system

The Identifiers.org URIs

ontologies) for the Life Sciences. It transforms an Identifiers.org URI into the various URLs leading to the various instances of the record identified by the URI. Identifiers.org is part of the ELIXIR Interoperability Platform
.

Identifier structure

An Identifiers.org URI is formed of several parts:

  • Protocol. Identifiers.org URIs are HTTP URIs and start with "http:/"
  • Data collection. These are namespaces listed in the
    gene ontology
  • Record in the collection. For instance "9606" is "3-fluorotoluene" in the collection PubChem, it is "Homo sapiens" in the collection "taxonomy" and it is a social science publication in the collection "pubmed".
  • Optional: Identifiers.org URIs can be suffixed with parameters, for instance imposing which resource to use for resolving, "profiles" that control the resolver's behaviour etc.
Structure and examples of Identifiers.org URIs.

Usage

The system allows a consistent and uniform annotation of datasets. This in turn facilitates data alignment and integration. Identifiers.org URIs are used to encode the metadata in the standard formats of the COMBINE initiative,

BioModels Database and Reactome export their data in SBML with cross-references encoded using Identifiers.org URIs. These URIs are also used in various semantic web projects such as Bio2RDF, Open PHACTS and the EBI RDF platform[5] Identifiers.org is part of the Interoperability platform of the European life-sciences Infrastructure for biological Information
.

Comparison with other URI systems

Identifiers.org URIs have been developed since 2011 as a resolvable version of the

PURLs, albeit providing alternative resolutions for collections with several instances. They are also similar to DOIs
, but provide human readable collection names, and re-use the record identifier assigned by the data provider.

See also

References

  1. PMID 22140103
    .
  2. ^ http://identifiers.org/ Identifiers.org Website
  3. PMID 18078503
    .
  4. ^ http://co.mbine.org/ COmputational Modeling in BIology NEtwork Web site
  5. doi:10.1093/bioinformatics/btt765

External links
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