Research article
Transcriptional response of rat frontal cortex following acute In Vivo exposure to the pyrethroid insecticides permethrin and deltamethrin
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* Corresponding author: Kevin M Crofton crofton.kevin@epa.gov
1 Curriculum in Toxicology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
2 Department of Biostatistics and the Carolina Environmental Bioinformatics Research Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
3 Neurotoxicology Division, National Health and Environmental Effects Research Laboratory, Office of Research and Development, United State Environmental Protection Agency, Research Triangle Park, North Carolina, USA
4 Human Exposure and Atmospheric Sciences Division, National Exposure Research Laboratory, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, USA
BMC Genomics 2008, 9:546 doi:10.1186/1471-2164-9-546
Published: 18 November 2008Additional files
Additional file 1:
Comparison of mean coefficients of variation (CV) between GCOSv1.2 and RMA microarray expression summaries. For each expression summary calculation method, all 31,042 probe sets present on the Affymetrix Rat 230 2.0 GeneChip® array were sorted based on the mean expression summary within the control group and divided into equally sized percentile ranges in ascending order. CV's were calculated for each individual probe set within each dose group. The mean CV for each percentile range was then calculated across probe sets for each dose group. Expression summaries calculated using RMA consistently reduces the variability of the expression summaries across the entire data set when compared to GCOSv1.2. A dramatic decrease in variability is observed in the lower 50% of the data set.
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Additional file 2:
Taqman® qRT-PCR assay information.
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Additional file 3:
List of probe sets with dose-dependent changes in expression for deltamethrin. Affymetrix probe set IDs without a gene symbol are expressed sequence tags (ESTs). Probe sets with arrows correspond to genes examined by qRT-PCR. Positive SAM di or PIR Mi scores denote upregulated probe sets. Negative SAM di or PIR Mi scores denote downregulated probe sets.
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Additional file 4:
List of probe sets with dose-dependent changes in expression for permethrin. Affymetrix probe set IDs without a gene symbol are expressed sequence tags (ESTs). Probe sets with arrows correspond to genes examined by qRT-PCR. Positive SAM di or PIR Mi scores denote upregulated probe sets. Negative SAM di or PIR Mi scores denote downregulated probe sets.
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Additional file 5:
Two-way analysis of variance (ANOVA) for qRT-PCR time course data.
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