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Sample GSM1525598 Query DataSets for GSM1525598
Status Public on Aug 10, 2015
Title HCAEC_si_RNF2
Sample type RNA
Source name Human coronary artery endothelial cell, siRNF213, replicate2
Organism Homo sapiens
Characteristics tissue: coronary artery endothelial cell
condition: siRNF213
Treatment protocol Transfection of siRNA was conducted using Lipofectamine RNAiMAX (Invitrogen) according to the manufacturer’s protocol.
Growth protocol HCAECs were cultured in EGM-2MV (Lonza) containing 10% fetal calf serum. All cell cultures were maintained at 37˚C in normoxic environments with 5% CO2 and 100% humidity.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from cells using TRIzol Reagent (nitrogen) and purified using SV Total RNA Isolation System (Promega)
Label Cy3
Label protocol cRNA was amplified and labelled using a Low input Quick Amp Labelling Kit (Agilent Technologies).
Hybridization protocol cRNA was hybridized to a 44K 60-mer oligomicroarray SurePrint G3 Human GE Microarray Kit 8x60K v2 ; Agilent Technologies) according to the manufacturer's instructions.
Scan protocol The hybridized microarray slides were scanned using an Agilent scanner. The relative hybridization intensities and background hybridization values were calculated using Feature Extraction Software version (Agilent Technologies).
Description Gene expression upon treatment with siRNF213
Data processing The scanned images were analyzed with Feature Extraction Software (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. The raw signal intensities and flags for each probe were calculated from the hybridization intensities and spot information according to the procedures recommended by Agilent Technologies using the Flag criteria in the GeneSpring Software. In addition, the raw signal intensities of four samples were normalized by the quantile algorithm with the Bioconductor.
Submission date Oct 15, 2014
Last update date Aug 10, 2015
Contact name Kazuhiro Ohkubo
Organization name Graduate School of Medical Sciences, Kyushu University
Department Department of Pediatrics
Street address 3-1-1, Maidashi, Higashi-ku
City Fukuoka
State/province Fukuoka
ZIP/Postal code 812-8582
Country Japan
Platform ID GPL17077
Series (1)
GSE62348 Gene expression profile in HCAECs transfected with RNF213 siRNA

Data table header descriptions
VALUE quantile normalized signal, non-log scaled and ABS CALL.

Data table
A_19_P00315452 338.7874 P
A_19_P00315459 115.7752575 P
A_19_P00315482 12.5569175 A
A_19_P00315492 6.97642425 A
A_19_P00315493 74.0344625 P
A_19_P00315502 9.75847975 A
A_19_P00315506 247.531325 P
A_19_P00315518 6.04970225 A
A_19_P00315519 3.47332275 A
A_19_P00315524 21.537785 P
A_19_P00315528 36.87789 P
A_19_P00315529 37.9075925 P
A_19_P00315538 6.80568975 A
A_19_P00315541 3.9501075 A
A_19_P00315543 27.9353025 P
A_19_P00315550 115.21045 P
A_19_P00315551 176.63035 P
A_19_P00315554 17.4100225 P
A_19_P00315581 1993.37075 P
A_19_P00315583 185.74665 P

Total number of rows: 50599

Table truncated, full table size 1280 Kbytes.

Supplementary file Size Download File type/resource
GSM1525598_US11030397_253949415659_S01_GE1_107_Sep09_1_1.txt.gz 12.4 Mb (ftp)(http) TXT
Processed data included within Sample table

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