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Sample GSM1058934 Query DataSets for GSM1058934
Status Public on Dec 31, 2012
Title RARE_KO_Ctrl_1
Sample type RNA
 
Source name RARE_KO_Ctrl
Organism Mus musculus
Characteristics cell type: ESC
genotype/variation: RARE_KO
treatment: EtOH
time: 0hr
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent in accordance with the prescribed protocol. Quality control was performed with RNA 6000 NanoAssay and a Bioanalyzer 2100 (Agilent).
Label biotin
Label protocol Total RNA from each sample was labeled using the Illumina Total Prep RNA Amplification kit (Ambion) and fragmented according to the manufacturer’s instructions.
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description SAMPLE 13
replicate 1
Data processing The data were normalized using quantile normalisation with GeneSpring 12.5 (Agilent)
 
Submission date Dec 31, 2012
Last update date Dec 31, 2012
Contact name Kristian Bruun Laursen
E-mail(s) krl2004@med.cornell.edu
Organization name Weill Cornell Medical College
Department Pharmacology
Lab Lorraine Gudas
Street address 1300 York Avenue
City New York
ZIP/Postal code NY 10065
Country USA
 
Platform ID GPL6885
Series (1)
GSE43221 Transcript levels in CCE WT and RARgamma knockout murine embryonic stem cells treated with either all-trans retinoic acid (8 and 24 hr) or with vehicle control

Data table header descriptions
ID_REF
VALUE quantile normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1248788 0.10907 0.67043
ILMN_2707227 0.03810 0.05639
ILMN_2896528 0.02153 0.00000
ILMN_2721178 0.05195 0.00000
ILMN_1227723 0.13659 0.00000
ILMN_3033922 -0.00992 0.00000
ILMN_3092673 -0.18739 0.00000
ILMN_2730714 -0.06185 0.00000
ILMN_3162224 0.03910 0.00000
ILMN_2816356 0.22728 0.00000
ILMN_2808939 -0.05228 0.00000
ILMN_2634564 0.04920 0.00000
ILMN_1216623 0.01177 0.00000
ILMN_1215157 -0.09814 0.00000
ILMN_1228777 0.47560 0.22932
ILMN_2737647 -0.08516 0.39223
ILMN_1216425 -0.14027 0.93860
ILMN_2734484 0.05638 0.00000
ILMN_2652961 0.01684 0.54261
ILMN_2952292 -0.03921 0.00000

Total number of rows: 25697

Table truncated, full table size 740 Kbytes.




Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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