|
| Status |
Public on Sep 30, 2011 |
| Title |
whole bone marrow-irradiated-vehicle-rep1 |
| Sample type |
RNA |
| |
|
| Source name |
whole bone marrow, irradiated on d10, vehicle treatment d11-d15
|
| Organism |
Mus musculus |
| Characteristics |
treatment: irradiated on d10, vehicle treatment d11-d15
strain: B6
tissue: whole bone marrow flush
|
| Treatment protocol |
Mice were sub-lethally irradiated for 2 fractions of 310cGy at 10 days of age, then PTH administration began 24 hours later for 5 days.
|
| Growth protocol |
B6 mice were grown to 10 days of age
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Long bones were harvested and flushed with Trizol. Extraction of total RNA was performed according to the manufacturer's instructions. RNA was cleaned up using the the Qiagen RNEasy Kit.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNA were prepared according to the Nugen Applause protocol from 100 ng total RNA (Nugen Applause WT-AMP ST V1 Manual, version 29 April 2009, NuGEN).
|
| |
|
| Hybridization protocol |
Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on Mouse gene ST 1.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
|
| Description |
gene expression from bone marrow flush in 16 day old mice irradiated at d10 and treated for 5 days with Vehicle
|
| Data processing |
Data was analyzed using the limma and affy Bioconductor packages implemented in the R-statistical environment. RMA was used to normalize the data and fit log2 transformed expression values.
|
| |
|
| Submission date |
Apr 24, 2011 |
| Last update date |
Sep 30, 2011 |
| Contact name |
Amy J Koh |
| Organization name |
University of Michigan
|
| Department |
POM
|
| Lab |
Laurie K. McCauley
|
| Street address |
1011 N. University Ave.
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE28819 |
Changes in the Bone Marrow Microenvironment Impact Anabolic Actions of PTH |
|
