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Sample GSM1058945 Query DataSets for GSM1058945
Status Public on Dec 31, 2012
Title RARE_KO_RA_24hr_3
Sample type RNA
Source name RARE_KO_RA_24hr
Organism Mus musculus
Characteristics cell type: ESC
genotype/variation: RARE_KO
treatment: RA
time: 24hr
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 24
replicate 3
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
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
VALUE quantile normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1248788 -0.14237 0.93609
ILMN_2707227 -0.19292 0.11404
ILMN_2896528 -0.45863 0.00000
ILMN_2721178 -0.40736 0.00000
ILMN_1227723 -0.26332 0.00000
ILMN_3033922 -0.19510 0.00000
ILMN_3092673 -0.31951 0.00000
ILMN_2730714 -0.32774 0.00000
ILMN_3162224 -0.40508 0.00000
ILMN_2816356 0.33035 0.00000
ILMN_2808939 0.00014 0.00000
ILMN_2634564 -0.32638 0.00000
ILMN_1216623 -0.42180 0.00000
ILMN_1215157 -0.34636 0.00000
ILMN_1228777 -0.12722 0.91103
ILMN_2737647 0.18130 0.15915
ILMN_1216425 0.05230 0.72556
ILMN_2734484 -0.25013 0.00000
ILMN_2652961 0.28802 0.21554
ILMN_2952292 -0.38237 0.00000

Total number of rows: 25697

Table truncated, full table size 739 Kbytes.

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

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