Simple Sloppy Semantic Database

The logo reflects S3DB's feature of producing and consuming RDF (Resource Description Framework)

Simple Sloppy Semantic Database (S3DB) is a distributed infrastructure that relies on Semantic Web concepts for management of heterogeneous data. This distributed data management system was first proposed in 2006^[1], following the argumentation the previous year that omics data sets would be more easily managed if fragmented in RDF triples. ^[2] That first version, 1.0, was focused on the support of an indexing engine for triplestore management. The second version, made available in October 2007, added cross-referencing between triples in distinct S3DB deployments to support it as a distributed infrastructure. The third version was released in July 2008 and exposes its API through a specialized query language (S3QL) accessible as a REST web service. An update of that release (version 3.5) also includes a RESTful SPARQL endpoint. This update introduced a self-update feature which replaces version numbers by date of update. The rationale, core data model, and usage are described and illustrated in a PLoS ONE manuscript published August 13, 2008 ^[3].

External links

Documentation and wiki are maintained at www.s3db.org. This application is publicly available with open source in PHP code at Google Code. The use of S3DB's web-services formatted as JSON is demonstrated in a youtube video.

References

^ Almeida JS, Chen C, Gorlitsky R; et al. (2006). "Data integration gets 'Sloppy'". Nat. Biotechnol. 24 (9): 1070–1. doi:10.1038/nbt0906-1070. PMID 16964209. {{cite journal}}: Explicit use of et al. in: |author= (help); Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
^ Wang X, Gorlitsky R, Almeida JS (2005). "From XML to RDF: how semantic web technologies will change the design of 'omic' standards". Nat. Biotechnol. 23 (9): 1099–103. doi:10.1038/nbt1139. PMID 16151403. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
^ Deus HF, Stanislaus R, Veiga DF; et al. (2008). "A Semantic Web management model for integrative biomedical informatics". PLoS ONE. 3 (8): e2946. doi:10.1371/journal.pone.0002946. PMC 2491554. PMID 18698353. {{cite journal}}: Explicit use of et al. in: |author= (help)CS1 maint: multiple names: authors list (link) CS1 maint: unflagged free DOI (link)

[1] Almeida JS, Chen C, Gorlitsky R; et al. (2006). "Data integration gets 'Sloppy'". Nat. Biotechnol. 24 (9): 1070–1. doi:10.1038/nbt0906-1070. PMID 16964209. {{cite journal}}: Explicit use of et al. in: |author= (help); Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)

[2] Wang X, Gorlitsky R, Almeida JS (2005). "From XML to RDF: how semantic web technologies will change the design of 'omic' standards". Nat. Biotechnol. 23 (9): 1099–103. doi:10.1038/nbt1139. PMID 16151403. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)

[3] Deus HF, Stanislaus R, Veiga DF; et al. (2008). "A Semantic Web management model for integrative biomedical informatics". PLoS ONE. 3 (8): e2946. doi:10.1371/journal.pone.0002946. PMC 2491554. PMID 18698353. {{cite journal}}: Explicit use of et al. in: |author= (help)CS1 maint: multiple names: authors list (link) CS1 maint: unflagged free DOI (link)

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