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Sample GSM440911 Query DataSets for GSM440911
Status Public on Oct 30, 2010
Title EpiSCs, biological replicate 2
Sample type RNA
Source name EpiSCs
Organism Mus musculus
Characteristics cell type: pluripotent epiblast stem cells
Growth protocol EpiSCs were cultured at 37°C with 5% CO2. EpiSCs were maintained on irradiated MEF feeders in DF12 (GIBCO), supplemented with 20% KSR (GIBCO), 0.1 mM Beta-mercaptoethanol (GIBCO), 2 mM L-glutamine, 0.1 mM MEM nonessential amino acid, and 10 ng/ml of bFGF (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 epiblast stem 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 Aug 14, 2009
Last update date Mar 20, 2010
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)
GSE17664 Conversion of Epiblast Stem Cells to Embryonic Stem Cells by Small Molecules

Data table header descriptions
VALUE Signal intensity

Data table
ILMN_1212607 38.2
ILMN_1212612 44
ILMN_1212619 107.2
ILMN_1212628 41.9
ILMN_1212632 52.9
ILMN_1212636 2484.3
ILMN_1212637 888.4
ILMN_1212645 63.6
ILMN_1212648 274.6
ILMN_1212653 87.7
ILMN_1212672 81.9
ILMN_1212682 43.8
ILMN_1212683 40
ILMN_1212685 36.5
ILMN_1212692 325
ILMN_1212693 50.8
ILMN_1212695 41.6
ILMN_1212698 31.8
ILMN_1212702 67
ILMN_1212703 84.8

Total number of rows: 25697

Table truncated, full table size 457 Kbytes.

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

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