|
| Status |
Public on Feb 03, 2008 |
| Title |
testis_wt_GD19_D |
| Sample type |
RNA |
| |
|
| Source name |
testis, LE/wt fetus at gestational day 19 - fetus D
|
| Organism |
Rattus norvegicus |
| Characteristics |
Strain: LE/wt
Gender: male
Age: Gestational day 19
Tissue: testis
Side: left
litter:3
fetus:35
|
| Treatment protocol |
The lower half of a fetus was placed in RNAlater. After storage at 4'C for at least 24 hours, the gubernaculum was dissected and placed in lysis buffer from the RNeasy Mini Kit (Qiagen)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the RNeasy Mini Kit (Qiagen) and contaminating DNA was removed with the RNAse-free DNase Set (Qiagen), both according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared as follows. 1 ug total RNA was labeled with the Affymetrix GeneChip One-Cycle cDNA synthesis Kit, according to the manufacturer's instructions.
Performed according to the standard Affymetrix protocol. This was performed at DuPont Haskell Laboratory for Health and Environmental Sciences.
|
| |
|
| Hybridization protocol |
Hybridization, washing and staining were performed according to the standard Affymetrix protocol with the Affymetrix Hybridization Oven 640 and GeneChip Fluidics Station. This was performed at DuPont Haskell Laboratory for Health and Environmental Sciences.
|
| Scan protocol |
GeneChips were scanned with the Affymetix GeneArray Scanner. This was performed at DuPont Haskell Laboratory for Health and Environmental Sciences.
|
| Description |
testis_wt_GD19_D
|
| Data processing |
The GC-RMA algorithm was used within the AffylmGUI package of Bioconductor to calculate log2 expression values. CEL files from all samples from the same tissue in the series were input together.
|
| |
|
| Submission date |
May 07, 2007 |
| Last update date |
Feb 03, 2008 |
| Contact name |
Julia S. Barthold |
| E-mail(s) |
barthold@medsci.udel.edu
|
| Organization name |
Nemours/AI duPont Hospital for Children
|
| Department |
Urology
|
| Street address |
1600 Rockland Road
|
| City |
Wilmington |
| State/province |
DE |
| ZIP/Postal code |
19803 |
| Country |
USA |
| |
|
| Platform ID |
GPL341 |
| Series (1) |
| GSE7755 |
Gene expression in fetal gubernaculum and testis of wildtype (LE/wt) and cryptorchid (LE/orl) rats |
|
