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Sample GSM1372655 Query DataSets for GSM1372655
Status Public on May 02, 2014
Title Control_1day_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
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1248788 140.9667668 0.593985
ILMN_2707227 155.2501583 0.06766918
ILMN_2896528 4897.206125 0
ILMN_2721178 1264.605083 0
ILMN_1227723 465.1566208 0
ILMN_3033922 2715.382167 0
ILMN_3092673 12251.90308 0
ILMN_2730714 6116.700917 0
ILMN_3162224 2532.196375 0
ILMN_2816356 164.8112292 0.0112782
ILMN_2808939 939.2627708 0
ILMN_2634564 798.8253375 0
ILMN_1216623 1026.6881 0
ILMN_1215157 1243.033558 0
ILMN_1228777 151.6372958 0.1528822
ILMN_2737647 149.1640622 0.2243108
ILMN_1216425 138.365825 0.7406015
ILMN_2734484 555.980025 0
ILMN_2652961 140.7863874 0.6015037
ILMN_2952292 271.1778708 0

Total number of rows: 25697

Table truncated, full table size 791 Kbytes.

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

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