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The CEREALAB Database: Ongoing Research and Future Challenges

  • Domenico Beneventano
  • Sonia Bergamaschi
  • Abdul Rahman Dannaoui
  • Justyna Milc
  • Nicola Pecchioni
  • Serena Sorrentino
Part of the Communications in Computer and Information Science book series (CCIS, volume 343)

Abstract

The objective of the CEREALAB database is to help the breeders in choosing molecular markers associated to the most important traits. Phenotypic and genotypic data obtained from the integration of open source databases with the data obtained by the CEREALAB project are made available to the users. The first version of the CEREALAB database has been extensively used within the frame of the CEREALAB project. This paper presents the main achievements and the ongoing research related to the CEREALAB database. First, as a result of the extensive use of the CEREALAB database, several extensions and improvements to the web application user interface were introduced. Second, always derived from end-user needs, the notion of provenance was introduced and partially implemented in the context of the CEREALAB database. Third, we describe some preliminary ideas to annotate the CEREALAB database and to publish it in the Linking Open Data network.

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References

  1. 1.
    Agrawal, P., Benjelloun, O., Sarma, A.D., Hayworth, C., Nabar, S., Sugihara, T., Widom, J.: Trio: a system for data, uncertainty, and lineage. In: VLDB 2006, pp. 1151–1154 (2006)Google Scholar
  2. 2.
    Beneventano, D., Bergamaschi, S., Guerra, F., Vincini, M.: Synthesizing an integrated ontology. IEEE Internet Computing 7(5), 42–51 (2003)CrossRefGoogle Scholar
  3. 3.
    Beneventano, D., Dannaoui, A.R., Sala, A.: Data lineage in the momis data fusion system. In: ICDE-Workshops, Hannover, Germany, April 11-16, pp. 53–58 (2011)Google Scholar
  4. 4.
    Beneventano, D., Dannoui, A.R., Sala, A.: Integration and provenance of cereals genotypic and phenotypic data. In: SEBD 2011, Proceedings of the 20th Italian Symposium on Advanced Database Systems, Venice, Italy, June 24-27, pp. 84–94 (2012); poster presented at the Data Integration in the Life Sciences Conference, June 28-29, Maryland (2012) Google Scholar
  5. 5.
    Bergamaschi, S., Beneventano, D., Guerra, F., Orsini, M.: Data integration. In: Handbook of Conceptual Modeling: Theory, Practice and Research Challenges. Springer (2011)Google Scholar
  6. 6.
    Bergamaschi, S., Guerra, F., Orsini, M., Sartori, C., Vincini, M.: A semantic approach to etl technologies. Data Knowl. Eng. 70(8), 717–731 (2011)CrossRefGoogle Scholar
  7. 7.
    Bergamaschi, S., Po, L., Sorrentino, S.: Automatic Annotation in Data Integration Systems. In: Meersman, R., Tari, Z., Herrero, P. (eds.) OTM-WS 2007, Part I. LNCS, vol. 4805, pp. 27–28. Springer, Heidelberg (2007)CrossRefGoogle Scholar
  8. 8.
    Bizer, C., Heath, T., Berners-Lee, T.: Linked data - the story so far. Int. J. Semantic Web Inf. Syst. 5(3), 1–22 (2009)CrossRefGoogle Scholar
  9. 9.
    Coletta, R., Castanier, E., Valduriez, P., Frisch, C., Ngo, D., Bellahsene, Z.: Public data integration with websmatch. CoRR abs/1205.2555 (2012)Google Scholar
  10. 10.
    Dannaoui, A.R., Sala, A., Beneventano, D., Milc, J., Caffagni, A., Pecchioni, N.: Release of the cerealab database v 2.0. submitted to DATABASE (2012)Google Scholar
  11. 11.
    Glavic, B., Alonso, G.: Perm: Processing provenance and data on the same data model through query rewriting. In: ICDE 2009, pp. 174–185 (2009)Google Scholar
  12. 12.
    Jagadish, H.V., Olken, F.: Database management for life sciences research. SIGMOD Rec. 33, 15–20 (2004), http://doi.acm.org/10.1145/1024694.1024697 CrossRefGoogle Scholar
  13. 13.
    Jain, P., Hitzler, P., Sheth, A.P., Verma, K., Yeh, P.Z.: Ontology Alignment for Linked Open Data. In: Patel-Schneider, P.F., Pan, Y., Hitzler, P., Mika, P., Zhang, L., Pan, J.Z., Horrocks, I., Glimm, B. (eds.) ISWC 2010, Part I. LNCS, vol. 6496, pp. 402–417. Springer, Heidelberg (2010)CrossRefGoogle Scholar
  14. 14.
    Milc, J., Sala, A., Bergamaschi, S., Pecchioni, N.: A genotypic and phenotypic information source for marker-assisted selection of cereals: the cerealab database. Database (2011)Google Scholar
  15. 15.
    Nešić, S., Rizzoli, A.E., Athanasiadis, I.N.: Publishing and Linking Semantically Annotated Agro-environmental Resources to LOD with AGROPub. In: García-Barriocanal, E., Cebeci, Z., Okur, M.C., Öztürk, A. (eds.) MTSR 2011. CCIS, vol. 240, pp. 478–488. Springer, Heidelberg (2011)CrossRefGoogle Scholar
  16. 16.
    Nolin, M.A., Corbeil, J., Lamontagne, L., Dumontier, M.: Bio2rdf: Convert, provide and reuse. In: Biocuration Meeting 2010, Tokyo, Japan (October 11, 2010)Google Scholar
  17. 17.
    Sorrentino, S., Bergamaschi, S., Gawinecki, M.: NORMS: An automatic tool to perform schema label normalization. In: Abiteboul, S., Böhm, K., Koch, C., Tan, K.L. (eds.) ICDE, pp. 1344–1347. IEEE Computer Society (2011)Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2012

Authors and Affiliations

  • Domenico Beneventano
    • 1
  • Sonia Bergamaschi
    • 2
  • Abdul Rahman Dannaoui
    • 1
    • 2
  • Justyna Milc
    • 2
  • Nicola Pecchioni
    • 2
  • Serena Sorrentino
    • 1
  1. 1.Department of Engineering ”Enzo Ferrari”University of Modena and Reggio EmiliaModenaItaly
  2. 2.Department of Life SciencesUniversity of Modena and Reggio EmiliaModenaItaly

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