Application of eVOC: controlled vocabularies for unifying gene expression data

Winston Hide; Damian Smedley; Mark McCarthy; Janet Kelso

doi:10.1016/j.crvi.2003.09.030

Application of eVOC: controlled vocabularies for unifying gene expression data

C R Biol. 2003 Oct-Nov;326(10-11):1089-96. doi: 10.1016/j.crvi.2003.09.030.

Authors

Winston Hide¹, Damian Smedley, Mark McCarthy, Janet Kelso

Affiliation

¹ South African National Bioinformatics Institute, University of the Western Cape, Bellville, 7535, South Africa. winhide@sanbi.ac.za

PMID: 14744118
DOI: 10.1016/j.crvi.2003.09.030

Abstract

To provide standardised description of gene expression and cross platform querying of databases, we have developed eVOC (http://www.sanbi.ac.za/evoc/), consisting of four orthogonal ontologies which describe Anatomical System, Cell Type, Pathology and Developmental Stage. We have annotated 47 microarray expression data sets and all publicly available human cDNA and SAGE tag libraries. eVOC has been integrated with the public resource EnsMart, which provides linking of transcripts and libraries with expression terms and the human genome sequence (http://www.ensembl.org/Homo_sapiens/martview).

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Databases, Genetic*
Gene Expression*
Vocabulary, Controlled*