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Provenance Context Entity (PaCE): Scalable Provenance Tracking for Scientific RDF Data

  • Conference paper
Scientific and Statistical Database Management (SSDBM 2010)

Part of the book series: Lecture Notes in Computer Science ((LNISA,volume 6187))

Abstract

The Resource Description Framework (RDF) format is being used by a large number of scientific applications to store and disseminate their datasets. The provenance information, describing the source or lineage of the datasets, is playing an increasingly significant role in ensuring data quality, computing trust value of the datasets, and ranking query results. Current provenance tracking approaches using the RDF reification vocabulary suffer from a number of known issues, including lack of formal semantics, use of blank nodes, and application-dependent interpretation of reified RDF triples. In this paper, we introduce a new approach called Provenance Context Entity (PaCE) that uses the notion of provenance context to create provenance-aware RDF triples. We also define the formal semantics of PaCE through a simple extension of the existing RDF(S) semantics that ensures compatibility of PaCE with existing Semantic Web tools and implementations. We have implemented the PaCE approach in the Biomedical Knowledge Repository (BKR) project at the US National Library of Medicine. The evaluations demonstrate a minimum of 49% reduction in total number of provenance-specific RDF triples generated using the PaCE approach as compared to RDF reification. In addition, performance for complex queries improves by three orders of magnitude and remains comparable to the RDF reification approach for simpler provenance queries.

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References

  1. Protein knowledgebase: Uniprot, http://www.uniprot.org/ (Retrieved January 10, 2010)

  2. Kanehisa, M., Goto, S., Kawashima, S., Okuno, Y., Hattori, M.: The KEGG resources for deciphering the genome. Nucleic Acids Res. 32, D277–D280 (2004)

    Article  Google Scholar 

  3. Reactome, http://www.reactome.org/ (Retrieved January 10, 2010)

  4. Entrez, http://www.ncbi.nlm.nih.gov/Database/ (Retrieved January 10, 2010)

  5. Bodenreider, O.: The Unified Medical Language System (UMLS): integrating biomedical terminology. Nucleic Acids Res. 32, 267–270 (2004)

    Article  Google Scholar 

  6. Bodenreider, O., Rindflesch, T.C.: Advanced library services: Developing a biomedical knowledge repository to support advanced information management applications. In: Lister Hill National Center for Biomedical Communications, National Library of Medicine, Bethesda, Maryland (2006)

    Google Scholar 

  7. Manola, F., Miller, E. (eds.): RDF Primer. W3C Recommendation (2004)

    Google Scholar 

  8. Hayes, P.: RDF Semantics. W3C Recommendation (2004)

    Google Scholar 

  9. ter Horst, H.J.: Completeness, decidability and complexity of entailment for RDF Schema and a semantic extension involving the OWL vocabulary. Journal of Web Semantics 3, 79–115 (2005)

    MathSciNet  Google Scholar 

  10. Sahoo, S.S., Barga, R.S., Sheth, A.P., Thirunarayan, K., Hitzler, P.: PrOM: A Semantic Web Framework for Provenance Management in Science. Kno.e.sis Center, Wright State University (2009)

    Google Scholar 

  11. Guha, R.V.: Contexts: A Formalization and Some Applications. PhD Thesis, Stanford University (1991)

    Google Scholar 

  12. Guha, R.V., McCarthy, J.: Varieties of Contexts. In: Blackburn, P., Ghidini, C., Turner, R.M., Giunchiglia, F. (eds.) CONTEXT 2003. LNCS, vol. 2680, pp. 164–177. Springer, Heidelberg (2003)

    Chapter  Google Scholar 

  13. Hitzler, P., Krötzsch, M., Parsia, B., Patel-Schneider, P.F., Rudolph, S.: OWL 2 Web Ontology Language Primer. W3C (2009)

    Google Scholar 

  14. Smith, B., Ceusters, W., Klagges, B., Kohler, J., Kumar, A., Lomax, J., Mungall, C., Neuhaus, F., Rector, A.L., Rosse, C.: Relations in biomedical ontologies. Genome Biol. 6, R46 (2005)

    Article  Google Scholar 

  15. Ayers, A., Völkel, M.: Cool URIs for the Semantic Web. In: Sauermann, L., Cyganiak, R. (eds.) Woking Draft. W3C (2008)

    Google Scholar 

  16. Prud’hommeaux, E., Seaborne, A.: SPARQL Query Language for RDF. W3C Recommendation (2008)

    Google Scholar 

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Sahoo, S.S., Bodenreider, O., Hitzler, P., Sheth, A., Thirunarayan, K. (2010). Provenance Context Entity (PaCE): Scalable Provenance Tracking for Scientific RDF Data. In: Gertz, M., Ludäscher, B. (eds) Scientific and Statistical Database Management. SSDBM 2010. Lecture Notes in Computer Science, vol 6187. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-13818-8_32

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  • DOI: https://doi.org/10.1007/978-3-642-13818-8_32

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-13817-1

  • Online ISBN: 978-3-642-13818-8

  • eBook Packages: Computer ScienceComputer Science (R0)

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