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Sample GSM381291 Query DataSets for GSM381291
Status Public on Mar 15, 2010
Title PC-3 - 28days
Sample type RNA
 
Channel 1
Source name prostate cancer cell line PC-3 - exposed to RB - 28 days
Organism Homo sapiens
Characteristics cell line: PC-3
gender: male
Treatment protocol Cells were passaged several times in log phase cultures. Experimental dishes were sandwiched with RBs. Another sets of dishes as reference samples were cultured without RBs.
Growth protocol The DU145, PC-3 and LNCaP cell lines were obtained from American Type Culture Collection (Manassas, VA, USA). DU145 cells were maintained in minimum essential medium supplemented with 10% heat-inactivated fetal calf serum, 2 mM L-glutamine, 100 U/ml penicillin G and 0.1 mM non-essential amino acids in an atmosphere of 5% CO2 at 37°C. PC-3 and LNCaP cells were maintained in F-12K medium and RPMI medium with the same supplements, respectively.
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol (Invitrogen, CA) and purified using RNeasy kit (QIAGEN, Hilden, Germany) following manufacturer's instructions
Label Cy5
Label protocol 4 µg of total RNA were labeled with Cy3 or Cy5 monoreactive dyes (Amersham, Buckinghamshire, UK) using RNA Transcript SureLABEL™ Core Kit (TaKaRa Bio) according to the manufacture’s instructions
 
Channel 2
Source name prostate cancer cell line PC-3 - control - 28 days
Organism Homo sapiens
Characteristics cell line: PC-3
gender: male
Treatment protocol Cells were passaged several times in log phase cultures. Experimental dishes were sandwiched with RBs. Another sets of dishes as reference samples were cultured without RBs.
Growth protocol The DU145, PC-3 and LNCaP cell lines were obtained from American Type Culture Collection (Manassas, VA, USA). DU145 cells were maintained in minimum essential medium supplemented with 10% heat-inactivated fetal calf serum, 2 mM L-glutamine, 100 U/ml penicillin G and 0.1 mM non-essential amino acids in an atmosphere of 5% CO2 at 37°C. PC-3 and LNCaP cells were maintained in F-12K medium and RPMI medium with the same supplements, respectively.
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol (Invitrogen, CA) and purified using RNeasy kit (QIAGEN, Hilden, Germany) following manufacturer's instructions
Label Cy3
Label protocol 4 µg of total RNA were labeled with Cy3 or Cy5 monoreactive dyes (Amersham, Buckinghamshire, UK) using RNA Transcript SureLABEL™ Core Kit (TaKaRa Bio) according to the manufacture’s instructions
 
 
Hybridization protocol hybridization buffer : 50% formamide-6 x SSC-0.2% SDS-5 x denhardt’s-0.2 mg/ml denatured salmon sperm, hybridization : at 70°C for 16 h, washing : three times with 2× SSC, 0.2% SDS at 65°C for 10 min, and rinsed once with 0.05 × SSC at room temperature
Scan protocol Scanned on an GMS 428 arrayer (Affymetrix Inc)
Images were quantified using ImaGene version 6.0 (Biodiscovery Inc., CA, USA)
Description PC-3 28days
Data processing LOWESS normalized, background subtracted data obtained from log2 of processed Red signal/processed Green signal. Data analysis was performed using the microarray data analysis software, Expressionist (GeneData AG, Basel, Switzerland).
 
Submission date Mar 17, 2009
Last update date Mar 15, 2010
Contact name Hiroki Shima
E-mail(s) shima@siqm.org
Phone 81-6-6372-8755
Organization name SHIMA Institution for Quantum Medicine
Street address 3-7-41 Nakatsu YAMAMOTO Bild. 4F. Kitaku
City Osaka
ZIP/Postal code 531-0071
Country Japan
 
Platform ID GPL8312
Series (2)
GSE15260 Effects of far-infrared rays on 3 human prostate cancer cell lines
GSE15266 Effects of far-infrared rays on prostate cancer cells and normal prostate epithelial cells

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
A0026 -0.23
A0027 0.15
A0028 0.08
A0029 0.10
A0030 -0.35
A0031 -0.01
A0032 0.20
A0033 -0.06
A0034 0.06
A0035 0.03
A0036 0.71
A0037 0.11
A0039 0.15
A0041 0.31
A0042 -0.10
A0043 0.09
A0044 0.28
A0045 0.02
A0047 -0.04
A0048 0.23

Total number of rows: 16784

Table truncated, full table size 178 Kbytes.




Supplementary file Size Download File type/resource
GSM381291.txt.gz 526.9 Kb (ftp)(http) TXT
Processed data included within Sample table

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