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Sample GSM496420 Query DataSets for GSM496420
Status Public on Jan 13, 2010
Title Liver of pup exposed to 0.2 mg/kg BW BDE-47 rep5
Sample type RNA
 
Source name rat liver
Organism Rattus norvegicus
Characteristics sex: female
tissue: liver
Treatment protocol Dams were randomly distributed among two groups (3 dams per group) and exposed by caudal injection (0.3 ml/kg body weight) from GD 15 to PND 20 every 5 days (a total of 6 injections/dam). Dams of the control group received vehicle: ethanol 95%, Cremophor EL, and sterile water (1:1:8, v/v); dams of exposed group 1 received 0.002 mg/kg body weight (BW) of BDE-47 in vehicle, and dams of exposed group 2 received 0.2 mg/kg body weight (BW) of BDE-47 in vehicle. Dams and pups were kept together until weaning on PND 21.
Growth protocol We obtainedtimed pregnant Wistar rats (250–300 g; Charles River Laboratories, St. Constant, Que., Canada) on gestational day (GD) 14 and housed them individually in plastic cages with sawdust bedding, under regulated temperature (21 ± 2 ° C), relative humidity (50 ± 10%) and a 12-hour light/dark cycle. Food (Rodent chow 5075; Charles River Laboratories) and water were provided ad libitum. All animals received care in compliance with the Guide to the Care and Use of Experimental Animals from the Canadian Council of Animal Care and the protocol was approved by our institutional animal research ethics review board.
Extracted molecule total RNA
Extraction protocol All tissues were snap-frozen in liquid nitrogen, and stored at -80°C until RNA extraction. RNA was extracted with the RNeasy Mini Kit (Qiagen, Maryland, USA) according to the manufacturer’s instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description individual pup
Data processing The raw data were pre-processed and normalized with the lumi Bioconductor package
 
Submission date Jan 12, 2010
Last update date Jan 12, 2010
Contact name Alexander Suvorov
E-mail(s) alexander.suvorov@usherbrooke.ca
Organization name Université de Sherbrooke
Street address 3001, 12e avenue Nord
City Sherbrooke
State/province Quebec
ZIP/Postal code J1H 5N4
Country Canada
 
Platform ID GPL6101
Series (1)
GSE19868 Liver of rat offsprings exposed perinatally to low doses of 2,2',4,4'-tetrabromodiphenyl ether

Data table header descriptions
ID_REF
VALUE Expression values in log2 scale (default rank invariant normalization)
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1373501 7.79849 0.1972705
ILMN_2039472 8.061346 0
ILMN_2038878 7.888974 0.007444169
ILMN_1376048 7.722524 0.7208437
ILMN_1649713 7.662428 0.9863524
ILMN_1372216 8.184496 0
ILMN_1351082 9.73805 0
ILMN_1369833 7.687927 0.9230769
ILMN_1358936 7.787669 0.251861
ILMN_1362572 8.292211 0
ILMN_1373317 7.688699 0.9193549
ILMN_1362555 7.777014 0.3188586
ILMN_1349120 11.39389 0
ILMN_1371572 7.7178 0.7580645
ILMN_1376159 7.810046 0.1513648
ILMN_1356538 8.991416 0
ILMN_1363102 7.871759 0.01985112
ILMN_1367665 11.03855 0
ILMN_1376797 7.741847 0.5769231
ILMN_1375302 8.527058 0

Total number of rows: 22523

Table truncated, full table size 628 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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