GeneBins: a database for classifying gene expression data, with application to plant genome arrays

BMC Bioinformatics. 2007 Mar 12;8:87. doi: 10.1186/1471-2105-8-87.

Abstract

Background: To interpret microarray experiments, several ontological analysis tools have been developed. However, current tools are limited to specific organisms.

Results: We developed a bioinformatics system to assign the probe set sequences of any organism to a hierarchical functional classification modelled on KEGG ontology. The GeneBins database currently supports the functional classification of expression data from four Affymetrix arrays; Arabidopsis thaliana, Oryza sativa, Glycine max and Medicago truncatula. An online analysis tool to identify relevant functions is also provided.

Conclusion: GeneBins provides resources to interpret gene expression results from microarray experiments. It is available at http://bioinfoserver.rsbs.anu.edu.au/utils/GeneBins/

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computational Biology / methods
  • Databases, Genetic* / classification
  • Gene Expression Profiling / classification
  • Gene Expression Profiling / methods*
  • Genes, Plant / genetics
  • Genome, Plant / genetics*
  • Oligonucleotide Array Sequence Analysis* / classification
  • Oligonucleotide Array Sequence Analysis* / methods
  • Plants / classification
  • Plants / genetics
  • Software