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Sample GSM871544 Query DataSets for GSM871544
Status Public on Mar 14, 2012
Title SE970N_miR_str
Sample type RNA
 
Source name normal-3_storoma
Organism Homo sapiens
Characteristics tissue type: normal
tissue: stroma
sample_id: normal-3
source classification: SE-970N
Treatment protocol Laser micro-dissection
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from tissue using the miRNeasy Mini Kit (Qiagen) according to the manufacturer's protocol. Concentrations and purities of the total RNAs were assessed with a spectrophotometer and RNA integrity was verified using an Agilent 2100 Bioanalyzer (Agilent Technologies). OD260/OD280 ratios of 1.8 – 2.1 were accepted to be adequate for microarray.
Label Cyanine
Label protocol Cyanine (Cy)-labeled cRNA was prepared using T7 linear amplification as described in the Agilent Low RNA Input Fluorescent Linear Amplification Kit Manual (Agilent Technologies).
 
Hybridization protocol Each total RNA sample (100 ng) or cRNA was competitively hybridized to a microarray according to the manufacturer's protocol (Wang H, Ach RA, Curry B. Direct and sensitive miRNA profiling from low-input total RNA. RNA. 2007;13:151-9.).
Scan protocol Slides were scanned on the Agilent DNA Microarray Scanner (G2505B).
Description SAMPLE 55
Data processing The intensity of each hybridization signal was evaluated using Extraction Software Version A.7.5.1 (Agilent Technologies), which used the locally weighted linear regression curve fit (LOWESS) normalization method.
 
Submission date Feb 07, 2012
Last update date Mar 14, 2012
Contact name Koshi Mimori
E-mail(s) [email protected]
Phone 81-977-27-1650
Fax 81-977-27-1651
Organization name Kyushu university
Department Department of Surgery
Lab Kyushu Univeristy Beppu Hospital
Street address 4546 Tsurumihara
City Beppu
State/province Oita
ZIP/Postal code 874-0838
Country Japan
 
Platform ID GPL8227
Series (1)
GSE35602 microRNA and Gene expression profiles in colorectal cancer stromal tissue

Data table header descriptions
ID_REF
VALUE LOWESS Normalized signal intensities

Data table
ID_REF VALUE
miRNABrightCorner30 10.797678
DarkCorner 2.6103315
hsa-miR-152 2.0984936
hsa-miR-627 0
hsa-miR-15a* 0
hsa-miR-520e 0.7654753
hsa-miR-632 0.6995161
hsa-miR-220a 0
ebv-miR-BART7 0
hsa-miR-337-5p 1.2930939
hsa-miR-921 0
hsa-miR-505* 0
hsa-miR-129-3p 0.6232301
hcmv-miR-UL22A 0
hsa-miR-489 0
hsa-miR-553 0.78992945
hsa-miR-125b 6.4272037
hsa-miR-219-2-3p 0
hsa-miR-542-5p 0
hsa-miR-766 4.7453985

Total number of rows: 821

Table truncated, full table size 14 Kbytes.




Supplementary file Size Download File type/resource
GSM871544_SE970N_miR_str.txt.gz 1.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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