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Sample GSM610316 Query DataSets for GSM610316
Status Public on Mar 02, 2012
Title G9a -/- 0h pIC Rep3
Sample type RNA
 
Source name MEF
Organism Mus musculus
Characteristics strain: C57Bl/6
genotype: G9a f/f, ERT2-Cre
passages: Passaged 12-15 times
treatment: treated with only transfection reagent
Treatment protocol Primary MEFs were immortalized at passage 2. At passage 5, MEFs were treated witheither EtOH as a vehicle control or Tamoxifen to induce deletion of G9a. MEFs were transfected with polyIC using Lipofectamine 2000.
Growth protocol MEFs were grown in 10 cm plates with DMEM medium containing 15% FBS, Pen/Strep, Glutamine, NEAA and 2-mercaptoethanol. After immortalization with SV40-LTA, MEFs were grown in 15 cm plates with the same medium except FBS was 10%.
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp Premier RNA Amplification kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description G9a -/- MEF treated with only transfection reagent
Data processing The data were normalised using percentile normalisation with GeneSpringGX 10
 
Submission date Oct 18, 2010
Last update date Mar 02, 2012
Contact name Terry Fang
E-mail(s) tfang@rockefeller.edu
Phone 212-327-8265
Fax 212-327-8258
Organization name Rockefeller University
Street address 1230 York Ave
City New York
State/province NY
ZIP/Postal code 10065
Country USA
 
Platform ID GPL6885
Series (2)
GSE24776 Histone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response (WT and G9a deficient MEFs)
GSE24826 Histone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response

Data table header descriptions
ID_REF
VALUE percentile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1212607 0.06364679 0.04511278
ILMN_1212612 -0.12439299 0.2669173
ILMN_1212619 0.71792936 0
ILMN_1212628 0.19542408 0.2493734
ILMN_1212632 0.10317016 0.07017544
ILMN_1212636 0.17097044 0
ILMN_1212637 0.3024497 0
ILMN_1212645 0.10843563 0.7443609
ILMN_1212648 -0.3333888 0
ILMN_1212653 0.5239532 0
ILMN_1212672 0.14597702 0
ILMN_1212682 0.060736656 0.05889724
ILMN_1212683 0.29511094 0.5100251
ILMN_1212685 0.12342477 0.4736842
ILMN_1212692 -0.024983168 0.6027569
ILMN_1212693 -0.46090484 0.001253133
ILMN_1212695 0.039860725 0.6541353
ILMN_1212698 -0.09525585 0.9874687
ILMN_1212702 0.116280794 0.5300752
ILMN_1212703 -0.18326783 0.001253133

Total number of rows: 25697

Table truncated, full table size 811 Kbytes.




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

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