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Sample GSM1672233 Query DataSets for GSM1672233
Status Public on Apr 30, 2019
Title Rh30_siNR4A1/2_rep3
Sample type RNA
 
Source name Rh30_siNR4A1/2
Organism Homo sapiens
Characteristics cell line: Rh30
cell type: Rhabdomyosarcoma
Treatment protocol Rh30 rhabdomyosarcoma cells were transfected for 48 hours with 25 nM of Dharmacon ON-TARGETplus SMARTpool NR4A-specific siRNA or non-targeting siRNA alone or in combination (total of 75nM siRNA) using 6μL Lipofectamine RNAiMAX per well of a 6-well plate
Growth protocol Rh30 rhabdomyosarcoma cells were cultured in RPMI-1640 medium containing 10% fetal bovine serum at 37°C, 5% CO2
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Promega simplyRNA kit and Maxwell-16 following manufacturer's instructions
Label Cy3
Label protocol 100ng of total RNA were labeled (Cy3) according to Agilent's labeling protocol
 
Hybridization protocol Microarray hybridization was performed at 65°C for 18 hours in Agilent's microarray hybridization chambers, followed by wash procedures according to the manufacturer’s recommended protocols
Scan protocol Microarray was scanned in an Agilent scanner at 3μm resolution, and the array data was extracted with Agilent feature extraction software using the GE1_107_Sep09 protocol
Description Gene expression after 48hr cotransfection with 25nM siRNA against NR4A1, 25nM siRNA against NR4A2, and 25nM non-targeting siRNA, biological replicate 3
Data processing Agilent Feature Extraction Software (version 10.5.1.1) was used along with LOWESS normalization
 
Submission date Apr 30, 2015
Last update date Apr 30, 2019
Contact name Yong-Dong Wang
E-mail(s) michael.wang@stjude.org
Phone 9015954224
Organization name St. Jude Children's Research Hospital
Street address 262 Danny Thomas Pl, MS1135
City Memphis
State/province TN
ZIP/Postal code 38134
Country USA
 
Platform ID GPL14550
Series (1)
GSE68458 Analysis of NR4A-specific gene expression in human alveolar rhabdomyosarcoma in response to specific gene knockdown

Data table header descriptions
ID_REF
VALUE Normalized log2 signal intensity

Data table
ID_REF VALUE
GE_BrightCorner 16.3037
DarkCorner 2.14473
A_23_P326296 8.61547
A_24_P287941 11.3536
A_24_P325046 6.2642
A_23_P200404 12.7342
A_19_P00800513 11.2295
A_23_P15619 4.91523
A_33_P3402354 7.3793
A_33_P3338798 2.94365
A_32_P98683 12.3837
A_23_P137543 10.8313
A_19_P00803040 9.99957
A_23_P117852 14.7427
A_33_P3285585 3.08404
A_24_P328231 8.05835
A_33_P3415668 10.3467
A_23_P73609 3.70558
A_24_P186124 9.68423
A_23_P369983 10.1881

Total number of rows: 42545

Table truncated, full table size 892 Kbytes.




Supplementary file Size Download File type/resource
GSM1672233_NR4A12_3.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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