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Sample GSM1372664 Query DataSets for GSM1372664
Status Public on May 02, 2014
Title Ezh2_Delete_0day_2
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 2
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 148.7762813 0.2781955
ILMN_2707227 152.2170347 0.1616541
ILMN_2896528 4354.781333 0
ILMN_2721178 1261.674496 0
ILMN_1227723 555.8468125 0
ILMN_3033922 1813.210708 0
ILMN_3092673 6898.943583 0
ILMN_2730714 4571.6455 0
ILMN_3162224 2840.909667 0
ILMN_2816356 165.9306194 0.02005013
ILMN_2808939 1092.101171 0
ILMN_2634564 941.85275 0
ILMN_1216623 1067.076046 0
ILMN_1215157 1407.286667 0
ILMN_1228777 140.1436042 0.7230576
ILMN_2737647 152.3072083 0.1578947
ILMN_1216425 139.4973836 0.7631579
ILMN_2734484 404.9026542 0
ILMN_2652961 162.5081083 0.03634085
ILMN_2952292 265.6313667 0

Total number of rows: 25697

Table truncated, full table size 795 Kbytes.




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

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