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Sample GSM1372661 Query DataSets for GSM1372661
Status Public on May 02, 2014
Title Control_4day_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
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1248788 139.9775458 0.6817043
ILMN_2707227 148.7621332 0.2343358
ILMN_2896528 4630.618125 0
ILMN_2721178 1270.966846 0
ILMN_1227723 491.098 0
ILMN_3033922 2561.028125 0
ILMN_3092673 10528.60196 0
ILMN_2730714 4571.6455 0
ILMN_3162224 2476.712833 0
ILMN_2816356 152.7520545 0.1378446
ILMN_2808939 1061.671279 0
ILMN_2634564 1012.741029 0
ILMN_1216623 1126.180338 0
ILMN_1215157 1458.988667 0
ILMN_1228777 143.9242 0.4548872
ILMN_2737647 153.2591375 0.1253133
ILMN_1216425 142.3907964 0.547619
ILMN_2734484 448.6694458 0
ILMN_2652961 136.101945 0.8408521
ILMN_2952292 309.5726885 0

Total number of rows: 25697

Table truncated, full table size 787 Kbytes.

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

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