|
| Status |
Public on Sep 24, 2010 |
| Title |
Muscle_TotalRNA_CC2523 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Longissimus dorsi, CC
|
| Organism |
Ovis aries |
| Characteristics |
age: 8 weeks
genotype: homozygous callipyge (Cmat/Cpat)
tissue: Longissimus dorsi muscle
identfier: CC2523
|
| Growth protocol |
Frozen tissue in liquid nitrogen.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol (Invitrogen) standard extraction protocol.
|
| Label |
Hy3
|
| Label protocol |
miRCURY™ LNA Array Power labeling kit.
|
| |
|
| Channel 2 |
| Source name |
Longissimus dorsi, reference
|
| Organism |
Ovis aries |
| Characteristics |
age: 8 weeks
genotype: NN, CN, NC, CC
tissue: Longissimus dorsi muscle
sample type: pool of the 8 samples used in this microarray experiment
|
| Growth protocol |
Frozen tissue in liquid nitrogen.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol (Invitrogen) standard extraction protocol.
|
| Label |
Hy5
|
| Label protocol |
miRCURY™ LNA Array Power labeling kit.
|
| |
|
| |
| Hybridization protocol |
Using Tecan hybridization stations, the hybridization and washing steps are fully automated. The arrays were incubated at 56°C for 16 h.
|
| Scan protocol |
Arrays were scanned using an Agilent G2505B Microarray Scanner System. The scanning is normally performed with 10 ìm. The sensitivity should be adjusted to 100% PMT. To avoid ozone bleaching, we scanned the microarrays in an ozone-free environment (less than 2 ppb ozone).
|
| Description |
Labelling, hybridization, washing, scanning and normalisation were performed by Exiqon (Denmark).
|
| Data processing |
Starting from raw data, the normalisation was made by background subtraction and normalisation with a global Lowess (LOcally WEighted Scatterplot Smoothing) regression algorithm (using ImaGene). This within-slide normalisation was performed to minimize differences between the colors in an intensity-dependent manner.
|
| |
|
| Submission date |
Sep 15, 2010 |
| Last update date |
Sep 23, 2010 |
| Contact name |
Florian Caiment |
| E-mail(s) |
fcaiment@ulg.ac.be
|
| Phone |
003243663821
|
| Organization name |
University of Liege
|
| Department |
GIGA
|
| Lab |
Unit of Animal Genomics
|
| Street address |
1 avenue de l'hopital
|
| City |
Liege |
| ZIP/Postal code |
4000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL7724 |
| Series (1) |
| GSE24146 |
Assessing the effect of the CLPG mutation on the microRNA catalogue of skeletal muscle using high-throughput sequencing |
|
