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Sample GSM2083153 Query DataSets for GSM2083153
Status Public on Mar 09, 2016
Title CMM1_Carprofen_6h_rep3
Sample type RNA
 
Source name CMM1_Carprofen_779 µM_6h
Organism Canis lupus familiaris
Characteristics cell line: Mi/CMM1
cell type: canine melanoma cell line
cell line source: oral melanoma
treated with: carprofen at 779 µMfor 6 h
Treatment protocol CMM1 cell line was seeded at 6.3×10^3 cells/cm2. After 24 hours, piroxicam, carprofen and robenacoxib were added at their half maximal inhibitory concentration (779, 116 and 156 microM, respectively). Cells were harvested after another 24 hour-incubation.
Growth protocol A canine melanoma cell line (CMM1) was maintained at 37°C in a humidified atmosphere of 5% CO2 in RPMI-1640 medium (Wako Pure Chemical Industries Ltd.,Osaka, Japan) supplemented with 10% heat-inactivated fetal bovine serum (FBS) (Gibco BRL, NY, USA) and 5 mg/L gentamicin (Sigma-Aldrich, MO, USA).
Extracted molecule total RNA
Extraction protocol Cells were lysed on dish and RNA toal RNA was ourified using RNeasy Mini Kit (Qiagen) according to the manufacturer’s instruction. RNA purity and integrity were confirmed with Agilent 2100 Bioanalyzer (Agilent Technologies). The RNA integrity numbers were above 9.0.
Label Cy3
Label protocol cDNA and Cy3-labeled cRNA were synthesized using Quick Amp Labeling Kit (Agilent Technologies) and RNA Spike-In One-Color Kit (Agilent Technologies) according to the manufacturer's instruction.
 
Hybridization protocol The purified cRNAs were quantified and hybridized to the Canine ver. 2 (4 × 44K) array (Agilent Technologies) using the Gene Expression Hybridization Kit (Agilent Technologies) according to the manufacturer's instruction.
Scan protocol The hybridized array was washed with Gene Expression Wash (Agilent Technologies) and captured using a High-Resolution Microarray Scanner (Agilent Technologies) according to the manufacturer's instruction. Feature Extraction Software (Agilent Technologies) was used to analyze the scanned images.
Description Carprofen_3
Gene expression data of canine melanoma cell line after exposure to three different NSAIDs
Data processing Probe annotation was performed using GeneSpring software (ver. 13.0) (Agilent technology). Data incorporation, preprocessing and quantile normalization were performed using R software (ver. 3.2.2) (R Development Core Team, 2005) and the limma R package (ver. 3.24.15)
 
Submission date Mar 08, 2016
Last update date Mar 09, 2016
Contact name Kohei Saeki
E-mail(s) asaeki@mail.ecc.u-tokyo.ac.jp
Phone +81358415405
Organization name The University of Tokyo
Street address 1-1-1 Yayoi, Bunkyo
City Tokyo
State/province Tokyo
ZIP/Postal code 113-8657
Country Japan
 
Platform ID GPL15379
Series (1)
GSE78988 Change in gene expression of a canine melanoma cell line caused by exposure to nonsteroidal anti-inflammatory drugs (NSAIDs) .

Data table header descriptions
ID_REF
VALUE Signal intensity after between-array quantile normalization

Data table
ID_REF VALUE
GE_BrightCorner 15.45982802
DarkCorner 4.317237333
A_11_P085196 8.40661319
A_11_P000003429 5.02672991
A_11_P187033 5.558821314
A_11_P000007800 5.450277224
A_11_P064226 5.481555106
A_11_P166448 13.98829748
A_11_P187078 4.422049409
A_11_P163658 10.46059685
A_11_P0000029785 5.513486136
A_11_P096766 6.087731877
A_11_P198798 11.04444546
A_11_P0000024888 12.84665184
A_11_P0000011420 8.218826355
A_11_P177878 8.290557252
A_11_P000008463 9.639891146
A_11_P168333 5.435075302
A_11_P056016 5.704260129
A_11_P121766 5.002570652

Total number of rows: 43663

Table truncated, full table size 1148 Kbytes.




Supplementary file Size Download File type/resource
GSM2083153_Carprofen_3.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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