|
| Status |
Public on Mar 21, 2012 |
| Title |
Control Diet Supplemented Mouse 2 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Control Diet Supplemented Mouse 2
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: B16F10 mouse melanoma cells
gender: male
|
| Treatment protocol |
Following a preliminary feeding of each diet formula for one week, 1 × 106 B16F10 cells (suspended with 100 μl of PBS) were subcutaneously injected into the back of the mice. After 2 weeks of diet supplementation, all mice were sacrificed.
|
| 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 |
genomic DNA |
| Extraction protocol |
Tumor tissue was excised for Chip-on-chip microarray. Chromatin immunoprecipitation was performed using the EpiQuik Tissue Chromatin Immunoprecipitation Kit from Epignetek (USA) (Cat# P-2003) as per manufacturer's instructions. Antibody used: Diagnode, anti-H3K4me3 polyclonal antibody, Catalogue No; PAB-003-050, Lot # A3152-003P.
|
| Label |
Cy5
|
| Label protocol |
The enriched DNA and input DNA were amplified with WGA2 kit and then labeled using Bioprime kit as following manufacturer's instructions
|
| |
|
| Channel 2 |
| Source name |
gDNA from pooled whole control diet supplemented Mouse
|
| Organism |
Mus musculus |
| Characteristics |
tissue: B16F10 mouse melanoma cells
reference: gDNA from pooled whole control diet supplemented Mouse
|
| Treatment protocol |
Following a preliminary feeding of each diet formula for one week, 1 × 106 B16F10 cells (suspended with 100 μl of PBS) were subcutaneously injected into the back of the mice. After 2 weeks of diet supplementation, all mice were sacrificed.
|
| 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 |
genomic DNA |
| Extraction protocol |
Tumor tissue was excised for Chip-on-chip microarray. Chromatin immunoprecipitation was performed using the EpiQuik Tissue Chromatin Immunoprecipitation Kit from Epignetek (USA) (Cat# P-2003) as per manufacturer's instructions. Antibody used: Diagnode, anti-H3K4me3 polyclonal antibody, Catalogue No; PAB-003-050, Lot # A3152-003P.
|
| Label |
Cy3
|
| Label protocol |
The enriched DNA and input DNA were amplified with WGA2 kit and then labeled using Bioprime kit as following manufacturer's instructions
|
| |
|
| |
| Hybridization protocol |
Oligoarray control targets and hybridization buffer (Agilent In Situ Hybridization Kit Plus) were added, and samples were applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers. After hybridization, slides were washed sequential
|
| Scan protocol |
Scanned on an Agilent G2565AA scanner.
|
| Description |
Xenografted Melanoma
|
| Data processing |
Agilent Feature Extraction Software (v 9.3.2.1) was used for background subtraction and LOWESS normalization.
|
| |
|
| Submission date |
Mar 20, 2012 |
| Last update date |
Mar 26, 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 |
GPL7099 |
| Series (1) |
| GSE36633 |
Analysis of differential genetic expression by dietary intervention using moderate-carbohydrate restriction diet supplemented with calorie restriction mimetic multiple phytochemicals extracts(MCDmp) in B16F10 xenografted mouse model. |
|
