|
| Status |
Public on May 22, 2012 |
| Title |
Soy-pool2 |
| Sample type |
RNA |
| |
|
| Source name |
postnatal day 64-rat mammary gland
|
| Organism |
Rattus norvegicus |
| Characteristics |
diet: Soy protein isolate
gender: female
strain: Sprague-Dawley
|
| Treatment protocol |
Groups of female rats were fed casein or soy protein isolate from post-natal day (PND) 30 until PND 64. On PND 50 all rats were ovariectomized and half of each group underwent E2 replacement via a mini-osmotic pump. At sacrifice (PND 64) abdominal mammary gland pairs were collected and fresh frozen in liquid nitrogen..
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mammary gland pairs were collected and fresh frozen in liquid nitrogen.
Total mammary glands RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion.
|
| Label |
biotin
|
| Label protocol |
First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N = 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
|
| Scan protocol |
The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
|
| Description |
hepatic gene expression
|
| Data processing |
Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.0.2.
|
| |
|
| Submission date |
May 20, 2012 |
| Last update date |
May 22, 2012 |
| Contact name |
Horacio Gomez-Acevedo |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Arkansas for Medical Sciences
|
| Department |
Biomedical Informatics
|
| Street address |
4301 W. Markham St
|
| City |
Little Rock |
| State/province |
Arkansas |
| ZIP/Postal code |
72205 |
| Country |
USA |
| |
|
| Platform ID |
GPL1355 |
| Series (1) |
| GSE38060 |
Changes in mammary gene expression and morphology following consumption of soy protein isolate in female Sprague-Dawley rats differs from that produced by 17b-estradiol treatment |
|
