Ontology concepts and tools for statistical genomics

V.J.Vincent J. Carey

Journal of Multivariate Analysis, 2004, vol. 90, issue 1, 213-228

Abstract: In computer science, an ontology is any formally structured vocabulary covering a conceptual domain. Gene Ontology (GO) is a structured collection of terms defining biological processes, cellular components, or molecular functions for the purpose of characterizing gene products and functions. The structure of GO is a directed acyclic graph (DAG) with typed edges. We describe a simple formalism for working with ontologies for statistical purposes, and define object-ontology complexes, which encode the usage of the vocabulary to label objects under analysis. Recently developed concepts of information content and semantic similarity are evaluated and used to explore the association between LocusLink loci and GO. We investigate relations between GO DAG structure, association evidence codes and term information content, illustrate computation of semantic similarities of genes within and between clusters discovered in a microarray, and describe a more general ontology and its use in inference on genetic network structure.

Keywords: Ontology; Semantics; Sparse; matrices; Bioinformatics (search for similar items in EconPapers)
Date: 2004
References: View complete reference list from CitEc
Citations:

Downloads: (external link)
http://www.sciencedirect.com/science/article/pii/S0047-259X(04)00022-3
Full text for ScienceDirect subscribers only

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:eee:jmvana:v:90:y:2004:i:1:p:213-228

Ordering information: This journal article can be ordered from
http://www.elsevier.com/wps/find/supportfaq.cws_home/regional
https://shop.elsevie ... _01_ooc_1&version=01

Access Statistics for this article

Journal of Multivariate Analysis is currently edited by de Leeuw, J.

More articles in Journal of Multivariate Analysis from Elsevier
Bibliographic data for series maintained by Catherine Liu ().