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Sample GSM488137 Query DataSets for GSM488137
Status Public on Apr 08, 2011
Title Rescue Clone Minus Dox replicate 3
Sample type RNA
 
Source name Rescue Clone Minus Dox replicate 3
Organism Mus musculus
Characteristics cell type: Embryonic Stem Cell
transfection: Wdr5R4 -dox
Growth protocol rtTA-expressing ES cells Aniv15 were used for derivation of rescue clones and 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 Wdr5 KD through shRNA expression
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 GPL6885
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
ILMN_2659724 7.662583682
ILMN_2706226 7.640225681
ILMN_1217123 7.662583682
ILMN_2780205 14.0469433
ILMN_2713160 7.668128684
ILMN_2650094 7.665887261
ILMN_2703479 7.670402348
ILMN_2952493 7.723771223
ILMN_2731592 7.969735482
ILMN_2729743 8.290221775
ILMN_1252621 9.184498269
ILMN_3162407 10.36650881
ILMN_2692952 7.827967069
ILMN_2910076 7.703030322
ILMN_2709047 9.152616745
ILMN_2718462 8.161559644
ILMN_2882078 9.8992983
ILMN_2882079 8.627890567
ILMN_2771368 7.647019296
ILMN_2724039 7.662039741

Total number of rows: 25697

Table truncated, full table size 624 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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