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Series GSE147379 Query DataSets for GSE147379
Status Public on Mar 24, 2020
Title Examination of gene expression changes after exposure to 29 chemicals in rat primary hepatocytes
Organism Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Summary In this study we examined transcriptional responses to 29 ToxCast chemicals in dose-response format. The chemicals were selected because in vitro transcriptional effects could be extrapolated to in vivo effects including liver cancer and steatosis incidences using in vitro to in vivo extrapolation.
 
Overall design Rat primary hepatocytes were plated on collagen-coated plates and treated with DMSO (0.1%) or 6 concentrations of chemical (100 or 33.3 uM as the top concentration with a log2 step-down of dose level). Cells were treated for 24 hrs. Purified RNA was examined for gene expression changes using the rat TempO-Seq targeted RNA-Seq platform (BioSpyder, Inc; Carlsbad CA). The following chemicals were examined in dose-response format: Acetochlor, Alachlor, Ametryn, Bensulide, Bisphenol A, Carbaryl, Cyclanilide, Cyproconazole, Cyprodinil, Di-2-ethylhexyl phthalate, Dichlobenil, Dimethenamid, Dithiopyr, Etoxazole, Fludioxonil, Flusilazole, Hexaconazole, Imazalil, Isoxaflutole, Oxadiazon, Perfluorooctanoic acid, Perfluorooctanesulfonate, S-Bioallethrin, Simazine, Tetraconazole, Triadimefon, Triclosan, Triflumizole, Triticonazole. In addition, a number of reference chemicals were examined at one concentration (17beta-estradiol, Dexamethasone, GW4046, Oltipraz, Pregnenolone 16-alpha-carbonitrile, Sulforaphane, TCPOBOP, Testosterone, WY-14,643).
 
Contributor(s) Corton JC, Ryan N
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Submission date Mar 23, 2020
Last update date Mar 25, 2020
Contact name Christopher Corton
E-mail(s) corton.chris@epa.gov
Organization name US-EPA
Lab MD B105-01
Street address 109 TW Alexander Dr.
City Research Triangle Park
State/province NC
ZIP/Postal code 27711
Country USA
 
Platforms (1)
GPL20084 Illumina NextSeq 500 (Rattus norvegicus)
Samples (192)
GSM4429514 Male rat primary hepatocyte_triclosan-33.3
GSM4429516 Male rat primary hepatocyte _triclosan-11.1
GSM4429518 Male rat primary hepatocyte _triclosan-3.7
Relations
BioProject PRJNA614463
SRA SRP253691

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
GSE147379_Corton_29_Chem_data_matrix.txt.gz 3.5 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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