Managing biological data using bdbms

Mohamed Y. Eltabakh, Mourad Ouzzani, Walid G. Aref, Ahmed K. Elmagarmid, Yasin Laura-Silva, Muhammad U. Arshad, David Salt, Ivan Baxter

Research output: Chapter in Book/Report/Conference proceedingConference contribution

14 Citations (Scopus)

Abstract

We demonstrate bdbms, an extensible database engine for biological databases. bdbms started on the observation that database technology has not kept pace with the specific requirements of biological databases and that several needed key functionalities are not supported at the engine level. While bdbms aims at supporting several of these functionalities, this demo focuses on: (1) Annotation and provenance management including storage, indexing, querying, and propagation, (2) Local dependency tracking of dependencies and derivations among data items, and (3) Update authorization to support data curation. We demonstrate how bdbms enables biologists to manipulate their databases, annotations, and derivation information in a unified database system using the Purdue Ionomics Information Management System (PiiMS) as a case study.

Original languageEnglish
Title of host publicationProceedings of the 2008 IEEE 24th International Conference on Data Engineering, ICDE'08
Pages1600-1603
Number of pages4
DOIs
Publication statusPublished - 1 Oct 2008
Event2008 IEEE 24th International Conference on Data Engineering, ICDE'08 - Cancun, Mexico
Duration: 7 Apr 200812 Apr 2008

Publication series

NameProceedings - International Conference on Data Engineering
ISSN (Print)1084-4627

Other

Other2008 IEEE 24th International Conference on Data Engineering, ICDE'08
CountryMexico
CityCancun
Period7/4/0812/4/08

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ASJC Scopus subject areas

  • Software
  • Signal Processing
  • Information Systems

Cite this

Eltabakh, M. Y., Ouzzani, M., Aref, W. G., Elmagarmid, A. K., Laura-Silva, Y., Arshad, M. U., Salt, D., & Baxter, I. (2008). Managing biological data using bdbms. In Proceedings of the 2008 IEEE 24th International Conference on Data Engineering, ICDE'08 (pp. 1600-1603). [4497631] (Proceedings - International Conference on Data Engineering). https://doi.org/10.1109/ICDE.2008.4497631