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Sample GSM456585 Query DataSets for GSM456585
Status Public on Nov 04, 2009
Title MEF rep1
Sample type RNA
 
Source name Mouse embryonic fibroblasts (MEFs)
Organism Mus musculus
Characteristics cell type: Embryonic Fibroblast Cells
Treatment protocol Cells were treated with small molecules as described in Ichida et al. (Cell Stem Cell, 2009).
Growth protocol Cells were grown in a monolayer on gelatin-coated plates, either with or without an irradiated mouse embryonic fibroblast (MEF) feeder layer. They were given standard mES media containing either fetal bovine serum (FBS) or knock-out serum replacement (KSR).
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent in accordance with the prescribed protocol.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion Illumina Total Prep RNA Amp kit.
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Non-normalized data file: RAW_2.txt
Data processing The data were normalized using cubic-spline normalization with BeadStudio.
 
Submission date Sep 25, 2009
Last update date Sep 25, 2009
Contact name Esther Yesde Son
E-mail(s) son@fas.harvard.edu
Phone 617-496-5611
Fax 617-384-5611
Organization name Harvard University
Department Stem Cells and Regenerative Biology
Lab Eggan
Street address 7 Divinity Avenue
City Cambridge
State/province MA
ZIP/Postal code 02138
Country USA
 
Platform ID GPL6885
Series (1)
GSE18286 Global gene expression analysis of (1) chemically reprogrammed iPS cells, and (2) chemical-treated cells

Data table header descriptions
ID_REF
VALUE Cubic-spline normalized signal intensity
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 1105.644 0
ILMN_2721178 249.5426 0
ILMN_3033922 584.9352 0
ILMN_3092673 2477.818 0
ILMN_2816356 38.79888 0.003759399
ILMN_2808939 451.4196 0
ILMN_2634564 267.1579 0
ILMN_2737647 1.568481 0.3496241
ILMN_2734484 391.0237 0
ILMN_2952292 39.40998 0.002506266
ILMN_2699078 -5.167763 0.9473684
ILMN_1213681 55.23634 0
ILMN_2735413 -3.535538 0.8007519
ILMN_2735415 3.68858 0.2606516
ILMN_2891688 415.4457 0
ILMN_2637698 522.5577 0
ILMN_2674228 95.60056 0
ILMN_2601546 11.13284 0.08646616
ILMN_1230831 3.327476 0.2769423
ILMN_2848071 11.01626 0.0877193

Total number of rows: 25697

Table truncated, full table size 743 Kbytes.




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

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