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Sample GSM1372665 Query DataSets for GSM1372665
Status Public on May 02, 2014
Title Ezh2_Delete_0day_3
Sample type RNA
 
Source name Differentiated NSCs
Organism Mus musculus
Characteristics age: P7-P9
tissue: SVZ
Treatment protocol Ezh2 was acutely deleted by the addition of 4-hydroxytamoxifen (4OHT) to SVZ NSC cultures generated from UBC-CreERT2;Ezh2F/F from P3-4
Growth protocol SVZ NSCs were passaged 5 times in proliferation medium(DMEM/F12/N2 – Invitrogen, 5% FCS - Hyclone, 20 ng ml-1 EGF, 20 ng ml-1 bFGF, 35 μg ml-1 bovine pituitary extract – Peprotech) before switching to differentiation media (same as proliferation media except with 2% FCS and no EGF or bFGF) for the specified time.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated by Trizol (Life Technologies), purified using the RNeasy Plus Mini Kit (Qiagen) and quantified using the NanoDrop spectrophotometer. Samples were checked for quality using an Agilent TapeStation
Label biotin
Label protocol Biotinylated cRNA was generated from total RNA using an Ambion Illumina RNA amplification kit (Ambion)
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description replicate 3
Data processing The data were normalised using quantile normalisation with IlluminaGUI in R
 
Submission date Apr 23, 2014
Last update date May 02, 2014
Contact name William Hwang
Organization name UCSF
Department Neurosurgery
Lab Lim
Street address Lim Lab - Box 0525, 35 Medical Center Way
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platform ID GPL6885
Series (1)
GSE56988 Timecourse analysis of Ezh2-dependent gene expression by SVZ NSCs during differentiation

Data table header descriptions
ID_REF
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1248788 141.543843 0.6340852
ILMN_2707227 156.8756787 0.0764411
ILMN_2896528 3516.421375 0
ILMN_2721178 1105.861325 0
ILMN_1227723 528.8176 0
ILMN_3033922 1713.301625 0
ILMN_3092673 6944.359333 0
ILMN_2730714 4739.607042 0
ILMN_3162224 2674.956667 0
ILMN_2816356 179.7356167 0.001253133
ILMN_2808939 1131.222408 0
ILMN_2634564 880.56975 0
ILMN_1216623 1022.886421 0
ILMN_1215157 1238.877871 0
ILMN_1228777 149.9553737 0.2155388
ILMN_2737647 156.1376917 0.08145364
ILMN_1216425 133.5955775 0.9461153
ILMN_2734484 396.4768167 0
ILMN_2652961 146.151462 0.3947369
ILMN_2952292 261.3228958 0

Total number of rows: 25697

Table truncated, full table size 800 Kbytes.




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

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