|
| Status |
Public on Nov 03, 2014 |
| Title |
HVC, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
HVC
|
| Organism |
Erithacus rubecula |
| Characteristics |
age: adult
gender: female
origin: wild
treatment: No treatment
tissue: HVC
|
| Treatment protocol |
Testosterone
|
| Growth protocol |
Adult robins housed in short light cycles in sound-proofed boxes
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For RNA preparation, brains were cut into four 40 µm para-sagittal sections mounted each on one slide . The areas were dissected with micro-scalpels under a stereo-microscope, transferred into Qiazol (Qiagen) and stored at -80 C till RNA preparation.
|
| Label |
biotin
|
| Label protocol |
RNA was processed for hybridization on the microarray by using the Ambion WT Expression Kit and the Affymetrix WT Terminal Labeling and Controls Kit.
|
| |
|
| Hybridization protocol |
The resulting cDNA was hybridized to the Custom Affymetrix Gene Chip® MPIO-ZF1s520811 Exon Array. The hybridization was carried out during 16 hours at 45°C and 60 rpm in the GeneChip Hybridization Oven 640.
|
| Scan protocol |
The arrays were washed, stained and scanned using the Affymetrix GeneChip Fluidics Station 450 and Affymetrix GeneChip scanner 3000 7G.
|
| Description |
HVC was dissected from cryosections
|
| Data processing |
The CEL files were generated by the Affymetrix® GeneChip® Command Console® Software (AGCC) and the quality control for evaluating the success of individual hybridizations was assessed by the Affymetrix® Expression Console™ software. Affymetrix CEL files were imported into ChipInspector software, version 21 (El Dorado Database version: E26R1204 Genomatix GmbH (http://www.genomatix.de)
ChipInspector fold changes are directly generated from the CEL files. Thus there is no normalization file, ChipInspector carries out significance analysis on the single probe level and the resulting file is Erubecula_female_HVCtestovsHVCcontrol.txt.
|
| |
|
| Submission date |
Jul 08, 2014 |
| Last update date |
Nov 04, 2014 |
| Contact name |
Carolina Frankl-Vilches |
| E-mail(s) |
frankl@orn.mpg.de
|
| Phone |
00498157932402
|
| Organization name |
Max Planck Institute for Ornithology
|
| Department |
Behavioural Neurobiology
|
| Street address |
Eberhard-Gwinner-Str. 6a
|
| City |
Seewiesen-Starnberg |
| State/province |
Bavaria |
| ZIP/Postal code |
82319 |
| Country |
Germany |
| |
|
| Platform ID |
GPL17605 |
| Series (1) |
| GSE59203 |
Testosterone effects on the HVC transcriptome of adult female European robins (Erithacus rubecula) |
|
