|
| Status |
Public on Dec 31, 2013 |
| Title |
Flank tumor-Curcumin Diet-3 |
| Sample type |
RNA |
| |
|
| Source name |
flank tumor-Curcumin Diet
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
gender: male
injected with: 1x10^5 B78H1 cells
diet group: chow enriched with 4% of curcumin (treatment)
tissue: flank tumor
molecule subtype: miRNA
|
| Treatment protocol |
Male C57BL/6 mice were used for the study.The diet consisted of either standard mouse chow (control group) or chow enriched with 4% of curcumin (treatment group) prepared from the same batch. The dietary intervention started 14 days before tumor induction and continued until the end of the in vivo experiments. For measurements of tumor size over 28 days, 1 x 10^5 B78H1 cells were injected subcutaneously in each flank of male C57BL/6 mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated after phenol/guanidine-based lysis of 50µg samples from flank tumors by silicamembrane-based purification with the miRNeasy Mini Kit (Quiagen) following the manufacturer’s instructions.
|
| Label |
Cy3
|
| Label protocol |
Total RNA samples were labelled using the Agilent miRNA Complete Labelling and Hybridisation Kit
|
| |
|
| Hybridization protocol |
Hybridisations were performed in Agilent SureHyb chambers for 20 hours at 55C and washed according to manufacturer's instructions.
|
| Scan protocol |
Array-chips were scanned in a high resolution microarray scanner from Agilent Technologies using Scan Control 8.5.1 software, 3 microns resolution in double path mode.
|
| Description |
Sample Curcumin Diet 3
|
| Data processing |
Signal intensity values were extracted from the raw data file using feature extraction software (Agilent Technologies). The gTotalProbeSignals were summed up to calculate the total expression value for each miRNA per sample. Quantile normalization was applied to normalize expression values across the arrays using the preprocessCore package of the programming language R. After that we log2-transformed the expression values.
|
| |
|
| Submission date |
May 23, 2013 |
| Last update date |
Dec 31, 2013 |
| Contact name |
Christina Backes |
| Organization name |
Saarland University
|
| Department |
Chair for Clinical Bioinformatics
|
| Street address |
Campus, Building E 2.1
|
| City |
Saarbrücken |
| ZIP/Postal code |
66123 |
| Country |
Germany |
| |
|
| Platform ID |
GPL16275 |
| Series (1) |
| GSE47211 |
Curcumin intake affects miRNA signature in murine melanoma with mmu-miR-205-5p most significantly altered. |
|
