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Sample GSM1118858 Query DataSets for GSM1118858
Status Public on Apr 22, 2013
Title LP_0_2w_586_RCC3_10013_Liver
Sample type RNA
Source name LP_0_2w_RCC3_Liver
Organism Rattus norvegicus
Characteristics additional information: frozen into RLT
array type: HT_Rat230_PM
amount to core: 50
units of amount: ul
od260: 20.44
od280: 9.834
ratio: 2.08
rna integrity number: 8.7
bioanalyzer results: Good
sample preservation: Frozen into RLT buffer
strain or line: F344/DuCrl
ncbi taxonomy id: 10114
individual: 586
developmental state: Adult
sacrifice method: Pentobarbital, Exsanguinated
Sex: Male
age: 10
units of age: Weeks
tissue: Liver
tissue harvest methods: Slices from each of the lobes were pooled together for microarray analysis
Biomaterial provider L. Pluta, The Hamner Institutes for Health Sciences, 6 Davis Drive, Research Triangle Park, NC, 27709, L. Pluta,, 9195581357
Treatment protocol in vivo Treatment: Rodent Chow Control 3, Treatment Repeat: 7, Units of Treatment Repeat: Days/Week, Treatment Duration: 2, Units of Duration: Weeks, Treatment Time: ad lib, Vehicle for Chemical: Rodent Chow, Route of Exposure: Diet, Dose or Concentration: 0, Units of Dose or Concentration: ppm
Extracted molecule total RNA
Extraction protocol Extraction Method: Qiagen
Label biotin
Label protocol standard Affymetrix protocol
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description LP_0_2w_586_RCC3_10013_LiverF_(HT_Rat230_PM)_C11: 1470 rats were used in this study: 6 chemicals, 4 time points, and 6 dose groups (including control). 10 animals per group and 5 extra control animals. Timepoints were 5d, 2w, 4w, and 13 weeks. Doses varied with compound (Tribromobenzene: 0, 2.5, 5, 10, 25, 75; Bromobenzene: 0, 25, 100, 200, 300, 400; Tetrachlorophenol: 0, 10, 25, 50, 100, 200; Methylenebis(N,N-dimethyl)benzen amine: 0, 50, 200, 375, 500, 750; Nitrosodiphenylamine: 0, 250, 1000, 2000, 3000, 4000; Hydrazobenzene: 0, 5, 20, 80, 200, 300). Animals were dosed through gavage or diet. Two of the protocols had female rats and the rest were male rats (see protocols). F344 and Sprague Dawley rats were used.
Data processing RMA normalization with Partek software program
Submission date Apr 09, 2013
Last update date Apr 23, 2013
Contact name Longlong Yang
Phone 919-558-1374
Organization name CIIT Centers for Health Research
Street address 6 Davis Dr.
City RTP
State/province NC
ZIP/Postal code 27709
Country USA
Platform ID GPL16985
Series (1)
GSE45892 Temporal Concordance between Apical and Transcriptional Points-of-Departure for Chemical Risk Assessment

Data table header descriptions
VALUE signal

Data table
1367452_PM_at 10.1545
1367453_PM_at 8.62341
1367454_PM_at 10.1268
1367455_PM_at 11.1384
1367456_PM_at 11.3966
1367457_PM_at 9.01015
1367458_PM_at 6.55
1367459_PM_at 11.6104
1367460_PM_at 11.0126
1367461_PM_at 9.78535
1367462_PM_at 9.02772
1367463_PM_at 10.0362
1367464_PM_at 8.52477
1367465_PM_at 10.2252
1367466_PM_at 8.13304
1367467_PM_at 10.5647
1367468_PM_at 8.97386
1367469_PM_at 11.3295
1367470_PM_at 9.85726
1367471_PM_at 8.52358

Total number of rows: 31139

Table truncated, full table size 669 Kbytes.

Supplementary file Size Download File type/resource
GSM1118858_LP_0_2w_586_RCC3_10013_LiverF_HT_Rat230_PM_C11.CEL.gz 1.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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