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Sample GSM927336 Query DataSets for GSM927336
Status Public on May 05, 2012
Title Moderate Restricted Carbohydrate Diet Supplemented Mouse 2
Sample type RNA
 
Source name Moderate Restricted Carbohydrate Diet Supplemented Mouse
Organism Mus musculus
Characteristics strain: C57BL/6
gender: male
tissue: liver tissue (non-tumor region)
disease model: human -HrasG12V / shp53/ GFP4 transposon vector induced transgenic mouse with liver cancer
Treatment protocol Following a preliminary feeding of each diet formula for one week, HrasG12V / shp53 / GFP4 gene containing transposon vector were injected into mouse tail vein by hydrodynamic injection method. After 5 weeks of diet supplementation, all mice were sacrificed. Mouse liver tissue was excised for microarray analysis.
Growth protocol Five- week- old male C57BL6 mice were randomly divided into two groups (n=3/group) and fed control diet (control group, LabDiet, Brentwood, MO, USA) or moderate restriced carbohydrate diet formula (MCD, Treat group) in a specific pathogen free zone. All procedures were approved by the institutional animal use and care committee.
Extracted molecule total RNA
Extraction protocol Non-tumor liver region was isolated from each mouse liver tissue. Total RNA extracted using Trizol following manufacturer's instructions.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.2 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
 
Hybridization protocol 1.65 ug of Cy3-labelled cRNA (specific activity >6.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Whole Mouse Genome Oligo Microarrays (G4122F) for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2565AA) using one color scan setting.
Data processing Agilent Feature Extraction Software (v 9.3.2.1) was used for background subtraction and LOWESS normalization.
 
Submission date May 04, 2012
Last update date May 05, 2012
Contact name Jong-Doo Lee
E-mail(s) JDLEE@yuhs.ac
Phone 82-10-2829-1159
Fax 82-2-312-0578
Organization name Yonsei University
Street address 250 seonsan-ro seodaemum-gu
City Seoul
ZIP/Postal code 120-752
Country South Korea
 
Platform ID GPL11202
Series (1)
GSE37762 Analysis of differential genetic expression by moderate-carbohydrate restriction diet with calorie restriction mimetic multiple phytochemicals (MCDmp) using a transgenic liver cancer model developed by a simple hydrodynamic transfection method.

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_51_P100034 2852.091
A_51_P100174 35.48796
A_51_P100208 3.909987
A_51_P100289 182.0021
A_51_P100298 29.672935
A_51_P100309 3.1780047
A_51_P100327 48.47776
A_51_P100347 35.62997
A_51_P100519 3.414376
A_51_P100537 6.724822
A_51_P100573 81.03128
A_51_P100624 3.056639
A_51_P100625 7330.576
A_51_P100768 4.700163
A_51_P100776 23.135237
A_51_P100787 646.69635
A_51_P100828 5236.7153
A_51_P100852 43.352695
A_51_P100991 43.3574
A_51_P100997 32.39189

Total number of rows: 39429

Table truncated, full table size 866 Kbytes.




Supplementary file Size Download File type/resource
GSM927336_GIII-2_005.txt.gz 9.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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