The team behind TOXsIgN has invested considerable time, resources, and effort into collecting, curating, processing, developing, and maintaining this web resource. Please follow the citation guidelines if you are using it.
TSS25 - DrugMatrix - Toxicogenomic signatures of Kidney after exposure to saquinavir (1500 mg/kg, 1 days) in the rat PublicInterventional
Affymetrix GeneChip data were quality controlled and normalized using using the RMA package with the custom CDF (GPL1355) provided by the BRAINARRAY resource. Next, data analysis was carried out using the Annotation, Mapping, Expression and Network (AMEN) analysis suite of tools (Chalmel & Primig, 2008). Briefly, genes yielding a signal higher than the detection threshold (median of the normalized dataset) and a fold-change >1.5 between exposed and control samples were selected. A Linear Model for Microarray Data (LIMMA) statistical test (F-value adjusted with the False Discovery Rate method: p < 0.05) was employed to identify significantly differentially expressed genes.