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In vivo Quantification of G Protein Coupled Receptor Interactions using Spectrally Resolved Two-photon Microscopy
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Published on: January 19, 2011

Gauging triple stores with actual biological data.

Vladimir Mironov, Nirmala Seethappan, Ward Blondé

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    |March 1, 2012
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    This summary is machine-generated.

    This study compared five triple stores for Semantic Web data integration. Virtuoso showed balanced performance, while SwiftOWLIM and 4Store excelled in specific query groups, offering insights for RDF data management.

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    Area of Science:

    • Computer Science
    • Bioinformatics

    Background:

    • Semantic Web technologies and Resource Description Framework (RDF) enable data integration beyond documents.
    • Triple stores are databases for RDF data, queried using SPARQL.
    • Federated queries across multiple triple stores are a key Semantic Web capability.

    Purpose of the Study:

    • To compare the efficiency of biologically relevant queries across different triple store implementations.
    • To evaluate data uploading time, query execution time, and scalability of non-commercial triple stores.

    Main Methods:

    • Performance testing of five non-commercial triple stores: OpenLink Virtuoso, Jena SDB, Jena TDB, SwiftOWLIM, and 4Store.
    • Utilized a library of previously developed queries for the Cell Cycle Ontology knowledge base.
    • Assessed data uploading, query execution times, and scalability.

    Main Results:

    • Individual triple store performance varied significantly depending on the query.
    • Queries were grouped into short, moderate, and long response time categories.
    • SwiftOWLIM led in short response times, 4Store in moderate, and Virtuoso in long response times.

    Conclusions:

    • Virtuoso demonstrated balanced performance, good scalability, and reproducibility, outperforming others on average.
    • SwiftOWLIM and 4Store exhibited idiosyncratic query-specific behaviors.
    • Jena SDB and Jena TDB were generally slower; most Virtuoso queries were transferable to other stores.