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Sample GSM402335 Query DataSets for GSM402335
Status Public on May 20, 2009
Title ES cells, biological replicate 2
Sample type RNA
Source name R1 mouse embryonic stem (ES) cells
Organism Mus musculus
Characteristics cell type: R1 mouse ES cells
Growth protocol ES cells were cultured at 37°C with 5% CO2. mES cells were maintained on irradiated MEF feeders in Dulbecco’s modified Eagle medium (DMEM; GIBCO), supplemented with 10% fetal bovine serum (FBS; GIBCO), 0.1 mM Beta-mercaptoethanol (GIBCO), 2 mM L-glutamine, 0.1 mM MEM nonessential amino acid, and 1,000 units/ml of LIF (Chemicon).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted and purified with RNeasy Plus minikit (Qiagen).
Label Biotin
Label protocol Biotin-16-UTP-labeled cRNA was synthesized from 500 ng total RNA with the Illumina TotalPrep RNA amplification kit (Ambion AMIL1791, Foster City, CA, USA).
Hybridization protocol The hybridization mix containing 750 ng of labeled amplified cRNA was prepared according to the Illumina BeadStation 500X System Manual (Illumina, San Diego, CA, USA) using the supplied reagents and GE Healthcare Streptavidin-Cy3 staining solution. Hybridization to the Illumina Array MouseRef-8 v2 was for 18 h at 55 °C on a BeadChip Hyb Wheel.
Scan protocol The array was scanned using the Illumina BeadArray Reader.
Description Gene expression data from mouse ES cells
Data processing The data were analyzed using Bead Array suite software. Rank invariant normalization method was chosen to obtain the signal intensity.
Submission date May 12, 2009
Last update date May 19, 2009
Contact name Hongyan Zhou
Organization name the scripps research institute
Street address 10550 North Torrey Pines Road
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
Platform ID GPL6885
Series (1)
GSE16062 Generation of Induced Pluripotent Stem Cells using Recombinant Proteins

Data table header descriptions
VALUE Signal intensity
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1248788 5.452204 0.362155
ILMN_2707227 6.050703 0.045113
ILMN_2896528 11.990515 0
ILMN_2721178 9.323895 0
ILMN_1227723 9.433659 0
ILMN_3033922 7.933294 0
ILMN_3092673 11.395588 0
ILMN_2730714 12.402609 0
ILMN_3162224 11.878573 0
ILMN_2816356 6.948082 0
ILMN_2808939 10.420659 0
ILMN_2634564 9.941051 0
ILMN_1216623 10.525201 0
ILMN_1215157 10.995634 0
ILMN_1228777 5.167552 0.829574
ILMN_2737647 5.293624 0.592732
ILMN_1216425 5.190295 0.789474
ILMN_2734484 9.861248 0
ILMN_2652961 5.791017 0.115288
ILMN_2952292 7.922425 0

Total number of rows: 25697

Table truncated, full table size 709 Kbytes.

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

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