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Sample GSM488140 Query DataSets for GSM488140
Status Public on Apr 08, 2011
Title GFP shRNA replicate 1
Sample type RNA
 
Source name GFP shRNA replicate 1
Organism Mus musculus
Characteristics cell type: Embryonic Stem Cell
transfection: GFP shRNA
Growth protocol Mouse CCE or E14T stem cells were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 103 U ml-1 of LIF (Chemicon) and doxycycline (1ug/ml)
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 Cy3
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Expressing GFP shRNA
Data processing Data was VST normalized in R using LUMI and LIMMA packages
 
Submission date Dec 20, 2009
Last update date Apr 08, 2011
Contact name Jonathan Monk
E-mail(s) jonathan.m.monk@gmail.com
Phone 9716457785
Organization name Mt. Sinai School of Medicine
Department Gene and Cell Medicine
Lab Lemischka
Street address One Gustave L. Levy Place
City New York
State/province NY
ZIP/Postal code 10029
Country USA
 
Platform ID GPL6481
Series (1)
GSE19588 Wdr5 mediates self-renewal and reprogramming via the embryonic stem cell core transcriptional network (2)

Data table header descriptions
ID_REF
VALUE VST normalized

Data table
ID_REF VALUE
10243 7.762335992
10280 7.665517831
10575 7.738193717
20048 7.77493104
20296 12.68773277
20343 7.828054783
20373 7.652886924
20431 10.29901439
50014 7.581292326
50017 7.613826113
50019 7.928877405
50020 7.682304634
50022 7.640175519
50025 7.565984948
50026 7.571234219
50035 7.610234954
50037 8.111848966
50039 8.300124027
50040 7.673040903
50041 7.746197229

Total number of rows: 46643

Table truncated, full table size 945 Kbytes.




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

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