Towards ad-hoc rule semantics for gene expression data

Marie Agier, Jean Marc Petit, Einoshin Suzuki

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

1 Citation (Scopus)

Abstract

The notion of rules is very popular and appears in different flavors, for example as association rules in data mining or as functional (or multivalued) dependencies in databases. Their syntax is the same but their semantics widely differs. In this article, we focus on semantics for which Armstrong's axioms are sound and complete. In this setting, we propose a unifying framework in which any "well-formed" semantics for rules may be integrated. We do not focus on the underlying data mining problems posed by the discovery of rules, rather we prefer to emphasize the expressiveness of our contribution in a particular domain of application: the understanding of gene regulatory networks from gene expression data. The key idea is that biologists have the opportunity to choose - among some predefined semantics - or to define the meaning of their rules which best fits into their requirements. Our proposition has been implemented and integrated into an existing open-source system named MeV of the TIGR environment devoted to microarray data interpretation.

Original languageEnglish
Title of host publicationLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Pages494-503
Number of pages10
Publication statusPublished - Dec 1 2005
Externally publishedYes
Event15th International Symposium on Methodologies for Intelligent Systems, ISMIS 2005 - Saratoga Springs, NY, United States
Duration: May 25 2005May 28 2005

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume3488 LNAI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other15th International Symposium on Methodologies for Intelligent Systems, ISMIS 2005
CountryUnited States
CitySaratoga Springs, NY
Period5/25/055/28/05

Fingerprint

Gene Expression Data
Gene expression
Semantics
Data mining
Data Mining
Flavors
Gene Regulatory Network
Association rules
Association Rules
Expressiveness
Multivalued
Microarrays
Microarray Data
Proposition
Open Source
Axioms
Genes
Choose
Acoustic waves
Requirements

All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Cite this

Agier, M., Petit, J. M., & Suzuki, E. (2005). Towards ad-hoc rule semantics for gene expression data. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (pp. 494-503). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3488 LNAI).

Towards ad-hoc rule semantics for gene expression data. / Agier, Marie; Petit, Jean Marc; Suzuki, Einoshin.

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2005. p. 494-503 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3488 LNAI).

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

Agier, M, Petit, JM & Suzuki, E 2005, Towards ad-hoc rule semantics for gene expression data. in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 3488 LNAI, pp. 494-503, 15th International Symposium on Methodologies for Intelligent Systems, ISMIS 2005, Saratoga Springs, NY, United States, 5/25/05.
Agier M, Petit JM, Suzuki E. Towards ad-hoc rule semantics for gene expression data. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2005. p. 494-503. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).
Agier, Marie ; Petit, Jean Marc ; Suzuki, Einoshin. / Towards ad-hoc rule semantics for gene expression data. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2005. pp. 494-503 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).
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