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Sample GSM610322 Query DataSets for GSM610322
Status Public on Mar 02, 2012
Title G9a f/f 6h pIC Rep3
Sample type RNA
 
Source name MEF
Organism Mus musculus
Characteristics strain: C57Bl/6
genotype: G9a -/-, ERT2-Cre
passages: Passaged 12-15 times
treatment: transfected with polyIC for 6h
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 f/f MEF transfected with polyIC for 6h
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 -0.29702902 0.08897243
ILMN_1212612 0.107904434 0.01378446
ILMN_1212619 0.066022396 0
ILMN_1212628 -0.015521526 0.2180451
ILMN_1212632 0.112468004 0.01002506
ILMN_1212636 -0.12365103 0
ILMN_1212637 -0.40058565 0
ILMN_1212645 -0.105762005 0.802005
ILMN_1212648 0.43688536 0
ILMN_1212653 -0.38004947 0
ILMN_1212672 -0.064557076 0
ILMN_1212682 -0.22861338 0.07769424
ILMN_1212683 -0.10183692 0.8909774
ILMN_1212685 0.10945916 0.179198
ILMN_1212692 2.10E-04 0.2067669
ILMN_1212693 0.13428187 0
ILMN_1212695 -0.058225155 0.4486215
ILMN_1212698 -0.2331152 0.9761904
ILMN_1212702 -0.001535177 0.3746867
ILMN_1212703 0.1273191 0

Total number of rows: 25697

Table truncated, full table size 797 Kbytes.




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

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