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Sample GSM1422507 Query DataSets for GSM1422507
Status Public on Nov 19, 2015
Title 5719882027H
Sample type RNA
 
Source name ST2RX2dox
Organism Mus musculus
Characteristics strain: THMYC
co-culture conditions: Mouse neuroblastoma
dox treatment: yes
Extracted molecule total RNA
Extraction protocol RNA was extracted with QIAGEN RNA mini kit, followed by clean-up and DNase I treatment in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol RNA was amplified using illumina Total RNA amplification kit. Total RNA was reverse transcribed using T7 oligo dT primer to generate first strand of cDNA. Biotinylated cRNA was generated from double stranded cDNA templates via in vitro transcription.
 
Hybridization protocol Standard Illumina bead array protocol was used using MouseRef-8_V2_R0_11278551 array
Scan protocol Standard Illumina scanning protocol
Description Gene expression signature regulating co-cultured mesenchymal and neuroblastoma cells
Data processing Data was bacground corrected using Bead studio Software (Illumina). The data were normalised using quantile normalisation with IlluminaGUI in R. detection scores were calculated in BeadStudio software.
 
Submission date Jun 30, 2014
Last update date Nov 19, 2015
Contact name Vasu Punj
E-mail(s) vasupunj@gmail.com
Organization name USC
Street address Biggy Street
City Los Angeles
State/province CA
ZIP/Postal code 90033
Country USA
 
Platform ID GPL6885
Series (1)
GSE58541 Interaction between bone marrow mesenchymal stromal cell and neuroblastoma cells leads to a VEGFA-mediated increase in osteoblastogenesis

Data table header descriptions
ID_REF
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1212607 -0.62026906 0.46491
ILMN_1212612 -0.85907435 0.19173
ILMN_1212619 -0.5188992 0.96617
ILMN_1212628 -0.73511195 0.27569
ILMN_1212632 -0.3127985 0.99875
ILMN_1212636 0.50733757 1
ILMN_1212637 0.027040005 1
ILMN_1212645 -0.77291894 0.00376
ILMN_1212648 0.4976356 1
ILMN_1212653 0.209028 1
ILMN_1212672 -0.15364957 0.99875
ILMN_1212682 -0.64374995 0.19674
ILMN_1212683 -0.7148733 0.27068
ILMN_1212685 -0.58023906 0.5802
ILMN_1212692 -0.6696472 0.53509
ILMN_1212693 -0.35441875 1
ILMN_1212695 -0.6986928 0.3797
ILMN_1212698 -0.57126474 0.3396
ILMN_1212702 -0.9210043 1
ILMN_1212703 -0.30439425 0.99875

Total number of rows: 25697

Table truncated, full table size 760 Kbytes.




Supplementary data files not provided
Processed data are available on Series record

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