Modeling miRNA data

Sarah Lopez, Guoqing Lu, Zhengxin Chen

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

Abstract

As a sub-type of ncRNA genes, micro RNA (miRNA) produces RNA that is implicated in the regulation of gene translation and expression. Human diseases can result from alternation in such non-coding RNA. Building a consolidated miRNA database repository thus becomes a crucial element for miRNA-related research. We have set up a dual objective in our work: To explore alternative approaches for miRNA data modeling, and to consolidate miRNA data in an integrated repository for future retrieval and analysis of miRNA data. We have explored three approaches for miRNA data modeling. For the same source data, we have implemented a relational database (converted from an initial entity-relationship diagram), an XML database, and an integrated XML-relational database. We have also compared their performance on the criteria of query performance and design flexibility. Though using entity-relationship modeling of the data provides access to the strength and stability of relational databases, our work concludes that XML information modeling and native XML databases provide geneticists the adaptability and flexibility required to model a complex, constantly changing domain such as miRNA research.

Original languageEnglish (US)
Title of host publicationProceedings of the 2007 ACM Symposium on Applied Computing
PublisherAssociation for Computing Machinery
Pages158-162
Number of pages5
ISBN (Print)1595934804, 9781595934802
DOIs
StatePublished - Jan 1 2007
Event2007 ACM Symposium on Applied Computing - Seoul, Korea, Republic of
Duration: Mar 11 2007Mar 15 2007

Publication series

NameProceedings of the ACM Symposium on Applied Computing

Conference

Conference2007 ACM Symposium on Applied Computing
CountryKorea, Republic of
CitySeoul
Period3/11/073/15/07

Fingerprint

RNA
XML
Data structures
Genes

Keywords

  • Data modeling
  • Database
  • MiRNA
  • Relational database
  • XML

ASJC Scopus subject areas

  • Software

Cite this

Lopez, S., Lu, G., & Chen, Z. (2007). Modeling miRNA data. In Proceedings of the 2007 ACM Symposium on Applied Computing (pp. 158-162). (Proceedings of the ACM Symposium on Applied Computing). Association for Computing Machinery. https://doi.org/10.1145/1244002.1244042

Modeling miRNA data. / Lopez, Sarah; Lu, Guoqing; Chen, Zhengxin.

Proceedings of the 2007 ACM Symposium on Applied Computing. Association for Computing Machinery, 2007. p. 158-162 (Proceedings of the ACM Symposium on Applied Computing).

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

Lopez, S, Lu, G & Chen, Z 2007, Modeling miRNA data. in Proceedings of the 2007 ACM Symposium on Applied Computing. Proceedings of the ACM Symposium on Applied Computing, Association for Computing Machinery, pp. 158-162, 2007 ACM Symposium on Applied Computing, Seoul, Korea, Republic of, 3/11/07. https://doi.org/10.1145/1244002.1244042
Lopez S, Lu G, Chen Z. Modeling miRNA data. In Proceedings of the 2007 ACM Symposium on Applied Computing. Association for Computing Machinery. 2007. p. 158-162. (Proceedings of the ACM Symposium on Applied Computing). https://doi.org/10.1145/1244002.1244042
Lopez, Sarah ; Lu, Guoqing ; Chen, Zhengxin. / Modeling miRNA data. Proceedings of the 2007 ACM Symposium on Applied Computing. Association for Computing Machinery, 2007. pp. 158-162 (Proceedings of the ACM Symposium on Applied Computing).
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