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Sample GSM1050018 Query DataSets for GSM1050018
Status Public on Apr 01, 2013
Title PFC_DID-treated_3
Sample type RNA
 
Source name mouse prefrontal cortex
Organism Mus musculus
Characteristics strain: C57BL/6J
age: 2.5 months
tissue: prefrontal cortex
paradigm: Drinking in the Dark -- limited access to one bottle of ethanol
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using mirVana™ miRNA Isolation kit, followed by DNase treatment with Turbo DNA-free™ according to the protocol supplied by the manufacturer (Ambion, Austin, TX). Quality control was performed with the Agilent Bioanalyzer.
Label biotin
Label protocol Biotinylated cRNAs were prepared with the Illumina® TotalPrep™ RNA Amplification kit from Ambion.
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Replicate 3
Data processing The R package Lumi was used to transform and normalize the data using variance stabilization transformation and quantile normalization. Only genes with a detection p value ≤ 0.05 and present on ≥ 80% of arrays are included in the normalized data.
Expression value outliers were identified with Grubbs' test and removed.
 
Submission date Dec 06, 2012
Last update date Apr 01, 2013
Contact name Elizabeth Osterndorff-Kahanek
Organization name University of Texas at Austin
Street address 2500 Speedway
City Austin
State/province TX
ZIP/Postal code 78712
Country USA
 
Platform ID GPL6885
Series (1)
GSE42789 Gene expression in brain and liver produced by three different regimens of alcohol consumption in mice: Comparison with immune activation

Data table header descriptions
ID_REF
VALUE Lumi-computed normalized data after selection by detection p value and presence on arrays; expression value outliers are removed.

Data table
ID_REF VALUE
ILMN_2896528 10.81615881
ILMN_2721178 9.059787931
ILMN_1227723 8.506809704
ILMN_3033922 9.932586085
ILMN_3092673 11.91368955
ILMN_2730714 11.24944557
ILMN_3162224 10.68362925
ILMN_2808939 9.825013947
ILMN_2634564 9.216232239
ILMN_1216623 9.362115498
ILMN_1215157 9.630147224
ILMN_2734484 9.428097175
ILMN_2660815 10.55273936
ILMN_1243593 9.027361124
ILMN_1219797 8.152506174
ILMN_1231132 9.573753809
ILMN_2718462 8.554535122
ILMN_2653881 9.662963777
ILMN_2638061 10.0709691
ILMN_1252243 8.91986824

Total number of rows: 11473

Table truncated, full table size 278 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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