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Sample GSM488141 Query DataSets for GSM488141
Status Public on Apr 08, 2011
Title GFP shRNA replicate 2
Sample type RNA
Source name GFP shRNA replicate 2
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
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
VALUE VST normalized

Data table
10243 7.689134047
10280 7.65898484
10575 7.689770369
20048 7.733726047
20296 12.62097001
20343 7.736358307
20373 7.660260512
20431 9.971895052
50014 7.566117312
50017 7.608896777
50019 7.828371538
50020 7.635299414
50022 7.640145694
50025 7.578729644
50026 7.587271669
50035 7.622708814
50037 7.943985749
50039 8.377204311
50040 7.658129143
50041 7.668332127

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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