|
| Status |
Public on Jan 01, 2009 |
| Title |
Broiler_4w_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Pectoralis major muscle, broiler, 4w
|
| Organism |
Gallus gallus |
| Characteristics |
Breed: AA, Gender: male, Tissule: Pectoralis major muscle
|
| Treatment protocol |
Both two chicken strains were fed with commercial layer diet. All the chickens were weighed weekly and 5 individuals randomly selected from each group were sacrificed for tissue sampling.
|
| Growth protocol |
All chickens were kept in floor pens under the same temperature and lighting conditions. For the first two days after hatch, chicks were kept in floor pens at 35°C under constant light. From the post-hatching third day to 8 weeks, temperature was reduced from 35°C to 18°C in a stepwise manner and lighting schedule was maintained at a 18 h light and 6 h darkness cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Pectoralis major muscles were excised and immediately frozen in liquid nitrogen and then stored at -70 °C until RNA extraction. Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA.
|
| |
|
| Hybridization protocol |
Affymetrix Gene Chip array hybridization was carried out according to Affymetrix Expression Analysis Technical Manual by GeneTech Biotechnology Limited Company (Shanghai, China). Following labeled cRNA fragmentation, 15 μg of cRNA were hybridized for 16 hr at 45℃ on Affymetrix Chicken Genome Array. Washing and staining were followed standard Affymetrix protocol.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 7G.
|
| Description |
5 randomly selected male individuals were used to make the total RNA pool.
|
| Data processing |
Raw intensity was processed by R packages. Background adjustment, probe-level normalization, pm-correction and probeset summary were achieved by RMA method in Affymetrix package. P/M/A calls were achieved by MAS5 method in Affymetrix package.
|
| |
|
| Submission date |
Oct 05, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
Qi Zheng |
| E-mail(s) |
e00011027@gmail.com
|
| Phone |
1-215-898-0808
|
| Organization name |
University of Pennsylvania
|
| Department |
Department of Biology
|
| Lab |
Gregory Lab
|
| Street address |
433 S. University Ave.
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL3213 |
| Series (1) |
| GSE9251 |
Systematic identification of genes involved in chicken muscle development |
|
