Improvement in reliability of probabilistic test of significant differences in GeneChip experiments

Anal Sci. 2004 Apr;20(4):731-3. doi: 10.2116/analsci.20.731.

Abstract

A probabilistic test (FUMI theory) for GeneChip experiments has been proposed for selecting the genes which show significant differences in the gene expression levels between a single pair of treatment and control. This paper describes that the reliability of the judgment by the FUMI theory can be enhanced, when the selected genes are referred to biomolecular-functional networks of a commercial database. The genes judged as being differently expressed are grouped into a cluster in the biomolecular networks. It is also demonstrated that false positive genes have a trend in the networks to be isolated from each other, and also away from the clustered genes, since the false positive genes are randomly selected.

MeSH terms

  • Algorithms
  • Databases, Protein
  • Enzyme Inhibitors / pharmacology
  • HL-60 Cells
  • Humans
  • Models, Statistical
  • Multigene Family
  • Oligonucleotide Array Sequence Analysis / statistics & numerical data*
  • Protein Kinase C / antagonists & inhibitors
  • Reproducibility of Results
  • Tetradecanoylphorbol Acetate

Substances

  • Enzyme Inhibitors
  • Protein Kinase C
  • Tetradecanoylphorbol Acetate