title: Comparison of gene expression methods to identify genes responsive to perfluorooctane sulfonic acid.
abstract: Genome-wide expression techniques are being increasingly used to assess the effects of environmental contaminants. Oligonucleotide or cDNA microarray methods make possible the screening of large numbers of known sequences for a given model species, while differential display analysis makes possible analysis of the expression of all the genes from any species. We report a comparison of two currently popular methods for genome-wide expression analysis in rat hepatoma cells treated with perfluorooctane sulfonic acid. The two analyses provided 'complimentary' information. Approximately 5% of the 8000 genes analyzed by the GeneChip array, were altered by a factor of three or greater. Differential display results were more difficult to interpret, since multiple gene products were present in most gel bands so a probabilistic approach was used to determine which pathways were affected. The mechanistic interpretation derived from these two methods was in agreement, both showing similar alterations in a specific set of genes.
authors.affiliation: Department of Zoology, 224 National Food Safety and Toxicology Center and Institute of Environmental Toxicology, Michigan State University, East Lansing, MI 48824-1311, USA.
authors.forename: Wenyue
authors.initials: W
authors.lastname: Hu
authors.forename: Paul D
authors.initials: PD
authors.lastname: Jones
authors.forename: Wim
authors.initials: W
authors.lastname: Decoen
authors.forename: John L
authors.initials: JL
authors.lastname: Newsted
authors.forename: John P
authors.initials: JP
authors.lastname: Giesy