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Series GSE28878 Query DataSets for GSE28878
Status Public on Aug 02, 2012
Title Expression Profiles of HepG2 cells treated with genotoxic and non-genotoxic agents
Organism Homo sapiens
Experiment type Expression profiling by array
Summary The lack of accurate in vitro assays for predicting in vivo toxicity of chemicals together with new legislations demanding replacement and reduction of animal testing has triggered the development of alternative methods. This study aimed at developing a transcriptomics-based in vitro prediction assay for in vivo genotoxicity. The transcriptomics changes induced in the human liver cell line HepG2 by 34 compounds after treatment for 12h, 24h and 48h were used for the selection of gene-sets that can discriminate between in vivo genotoxins (GTX) and in vivo non-genotoxins (NGTX). By combining publicly available results for these chemicals from standard in vitro genotoxicity studies with transcriptomics, we developed several prediction models. These models were validated by means of an additional set of 28 chemicals.
 
Overall design The study investigated differential gene expression in HepG2 cell line mRNA following 12 hours of exposure to 34 different compounds and their solvents; 24 and 48 hours of exposure to 62 different compounds and their solvents. Three biological replicates per compound/solvent. In total 560 arrays .
 
Contributor(s) Magkoufopoulou C
Citation(s) 22623647
Submission date Apr 27, 2011
Last update date Jun 04, 2014
Contact name Christina Magkoufopoulou
E-mail(s) c.magkoufopoulou@GRAT.unimaas.nl
Organization name Maastricht University
Department Health Risk Analysis and Toxicology
Street address Universiteitssingel 50
City Maastricht
ZIP/Postal code 6200 MD
Country Netherlands
 
Platforms (1)
GPL9101 Affymetrix GeneChip Human Genome U133 Plus 2.0 Array (MBNI v11 Entrez Gene ID CDF)
Samples (560)
GSM714821 Serie A, HepG2 exposed to BaP for 12h, biological rep 1
GSM714822 Serie A, HepG2 exposed to BaP for 12h, biological rep 2
GSM714823 Serie A, HepG2 exposed to BaP for 12h, biological rep 3
Relations
BioProject PRJNA140629

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE28878_RAW.tar 2.6 Gb (http)(custom) TAR (of CEL)
Processed data included within Sample table
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