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Sample GSM1098610 Query DataSets for GSM1098610
Status Public on May 01, 2013
Title ESCs_AllStars_rep1
Sample type RNA
Source name VV3 ESCs, control siRNA transfected
Organism Mus musculus
Characteristics strain/background: 129SV
gender: male
cell line: VV3
cell type: embryonic stem cells (ESCs)
sirna: non-silencing negative control
Treatment protocol ESCs were transfected with non-silencing negative control siRNA (AllStars) using Lipofectamine RNAiMAX. After 3 days culture, the live and single cells were purified using FACS from the ESCs.
Growth protocol Cells were cultured with ESCs medium with 14% KSR, 1% FBS and LIF at 37 ÂșC in a humidified incubator with 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was purified using the RNeasy micro kit according to the manufacturer's instructions.
Label Cy3
Label protocol Cy3-labeled cRNA samples were prepared using the Agilent Low Input Quick Amp Labeling Kit (one-color) (5190-2305) and RNA Spike-In Kit (one-color) (5188-5282) according to the manufacturer's instructions. Input was 100 ng of total RNA from each sample.
Hybridization protocol 1.65ug of Cy3-labelled cRNAs from each sample were fragmented and hybridized to microarrays according to the manufacturer's instructions using the Gene Expression Hybridization kit (Agilent 5188-5242) and Agilent hybridization oven. After hybridization, microarrays were washed using the Gene Expression Wash Pack (Agilent 5188-5327).
Scan protocol The microarrays were scanned using the Agilent DNA microarray scanner (Agilent G2505C); the spot signals were quantified using Feature Extraction software.
Description Gene expression of negative control siRNA-transfected VV3 mouse ESCs.
Data processing Data was normalized and analyzed by GeneSpring GX (Agilent).
Submission date Mar 14, 2013
Last update date May 01, 2013
Contact name Ikuma Maeda
Phone +81-22-717-8572
Fax +81-22-717-8573
Organization name Institute of Development, Aging and Cancer, Tohoku University
Lab Cell Resource Center for Biomedical Research
Street address 4-1 Seiryomachi, Aoba-ku
City Sendai
State/province Miyagi
ZIP/Postal code 980-8575
Country Japan
Platform ID GPL11202
Series (1)
GSE45181 Max is a repressor of germ-cell-related gene expression in mouse embryonic stem cells

Data table header descriptions
VALUE Normalized signal intensity

Data table
GE_BrightCorner 0.4027071
DarkCorner 0
A_55_P1989846 0.07570505
A_55_P1991598 -0.3013687
A_55_P2022211 0.11131668
A_55_P1980764 0.9478731
A_55_P1964375 -0.052527428
A_51_P128876 0.14512157
A_55_P2121042 0
A_52_P219230 0
A_51_P207591 1.5499496
A_55_P2131920 0
A_55_P2404223 0
A_55_P2101944 0.30577946
A_52_P358860 -0.047607422
A_51_P119031 0.023758888
A_51_P309854 0.003534794
A_51_P343900 0
A_51_P234359 1.0978851
A_51_P487813 0.41788864

Total number of rows: 39485

Table truncated, full table size 904 Kbytes.

Supplementary file Size Download File type/resource
GSM1098610_252665511678_1.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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