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Sample GSM440913 Query DataSets for GSM440913
Status Public on Oct 30, 2010
Title parnate/mAMFGi, biological replicate 2
Sample type RNA
Source name parnate/mAMFGi
Organism Mus musculus
Characteristics cell type: converted mouse ESCs
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 converted 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 44.1
ILMN_1212612 45.1
ILMN_1212619 62.4
ILMN_1212628 50.2
ILMN_1212632 57.8
ILMN_1212636 2822.7
ILMN_1212637 761.9
ILMN_1212645 49.5
ILMN_1212648 323.4
ILMN_1212653 54.8
ILMN_1212672 280.4
ILMN_1212682 39.2
ILMN_1212683 43.1
ILMN_1212685 39.7
ILMN_1212692 117.9
ILMN_1212693 46.3
ILMN_1212695 38.9
ILMN_1212698 32.2
ILMN_1212702 41.5
ILMN_1212703 80.8

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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