|
| Status |
Public on Jun 30, 2016 |
| Title |
Testis_trcp(1;14)_3 |
| Sample type |
RNA |
| |
|
| Source name |
Testicular biopsy
|
| Organism |
Sus scrofa |
| Characteristics |
semen parameters: Oligo-astheno-teratospermic
chromosomal status: (2n=38,XY,trcp(1;14)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from three independant testicular biopsies was extracted using the Nucleospin RNA kit (Macherey-Nagel). Quantity and quality of RNA was evaluated by NanoDrop dosage and Bioanalyser analysis (Agilent Technologies).
|
| Label |
Cy3
|
| Label protocol |
Label, hybridation , scan and data extraction were performed by the GeT-Biopuces platform following manufacturer's intruction. Samples were then marked by Cyanine-3 fluorochrome and converted in cDNA before hybridization on the 60K customized chip from Agilent (Voillet et al., 2014).
|
| |
|
| Hybridization protocol |
Microarray hybridation oven according to manufacturer's instruction
|
| Scan protocol |
Image analysis using the Feature Extraction software (Agilent).
|
| Description |
Gene expression analysis in infertile boars
|
| Data processing |
Data were filtered to keep only spots of sufficient intensity and quality for at least 2 out of 3 technical replicates. Intensity values were log-transformed and normalized by the quantile normalization method. Differential analysis was then performed using the Limma package (Bioconductor). Threshold parameters were defined as follow: maximal adjusted p-value (Benjamini& Hochberg) of 0.01 and minimal log-fold change (lfc) of 2.
|
| |
|
| Submission date |
Apr 26, 2016 |
| Last update date |
Jun 30, 2016 |
| Contact name |
Herve Acloque |
| E-mail(s) |
herve.acloque@toulouse.inra.fr
|
| Organization name |
INRA
|
| Department |
Animal Genetics
|
| Lab |
GenPhySE UMR1388
|
| Street address |
24 chemin de Borde Rouge
|
| City |
Castanet-Tolosan |
| ZIP/Postal code |
31326 |
| Country |
France |
| |
|
| Platform ID |
GPL20779 |
| Series (1) |
| GSE80693 |
Meiotic behavior analysis of a balanced reciprocal translocation in the pig |
|
