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Sample GSM1633447 Query DataSets for GSM1633447
Status Public on Nov 13, 2015
Title Tumor_35
Sample type RNA
 
Source name female_smoker_tumor
Organism Homo sapiens
Characteristics age (yrs): 60
smoking: Smoker
gender: Female
tissue: Lung adenocarcinoma tissue
Stage: IIIa
tp53 mutation: wild type
egfr mutation: wild type
kras mutation: wild type
Treatment protocol Tissue obtained at the surgery were snap frozen in liquid nitrogen and stored at –80°C until DNA and RNA isolation.
Extracted molecule total RNA
Extraction protocol Standard TRIZOL methods (Invitrogen, Carlsbad, CA, USA) were used to extract total RNA and the procedure was done according to manufacturer's instruction.
Label Cy3
Label protocol Total RNA from each tumor sample (50ng) was converted to cDNA through reverse transcription with the use of a T7-oligo (dT) primer. By using quick-AMP labeling kit (Agilent technologies), amplified and Cy3-labeled cRNA were produced.
 
Hybridization protocol The labeled cRNA were hybridized to slides that were incubated for 17 hours at 65°C.
Scan protocol Arrays were scanned by using Agilent Microarray Scanner (Agilent technologies) and the raw data were preprocessed with the Agilent's Feature Extraction Software with default parameters (Agilent feature extraction version 10.7.3.1).
Description Sample35
Data processing The gene expression values were log 2 transformed and normalized between arrays by using the 75th percentile method in Genespring GX analysis Software v.12.1 (Agilent technology).
 
Submission date Mar 13, 2015
Last update date Nov 13, 2015
Contact name Maria Moksnes Bjaanæs
E-mail(s) maria.moksnes.bjaanas@rr-research.no
Phone +4797123468
Organization name Oslo Universitetssykehus
Department Department of genetics
Street address Ullernchausseen 70
City Oslo
ZIP/Postal code 0310
Country Norway
 
Platform ID GPL14550
Series (1)
GSE66863 Genome-wide DNA methylation signature in lung adenocarcinomas has prognostic impact [gene expression]

Data table header descriptions
ID_REF
VALUE log2 normalized

Data table
ID_REF VALUE
GE_BrightCorner -0.00716114
DarkCorner 0.43483305
A_23_P326296 -0.46801662
A_24_P287941 -0.19418287
A_24_P325046 -1.0762067
A_23_P200404 0.44803333
A_19_P00800513 -0.33416748
A_23_P15619 0.033459663
A_33_P3402354 -0.012264729
A_33_P3338798 0.2847848
A_32_P98683 -0.5691538
A_23_P137543 0.08668518
A_19_P00803040 -0.3107891
A_23_P117852 0.4768257
A_33_P3285585 0.34306526
A_24_P328231 -0.18364954
A_33_P3415668 0.4813919
A_23_P73609 -0.49470615
A_24_P186124 -0.30666018
A_23_P369983 -0.24812889

Total number of rows: 42545

Table truncated, full table size 1022 Kbytes.




Supplementary file Size Download File type/resource
GSM1633447_111216_252800414579_S01_GE1_107_Sep09_1_1.txt.gz 12.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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