|
| Status |
Public on Oct 16, 2009 |
| Title |
Hypertrophic-1 |
| Sample type |
RNA |
| |
|
| Source name |
Tibiotarsus growth plate, hypertrophic chondrocytes
|
| Organism |
Gallus gallus |
| Characteristics |
tissue: Tibiotarsus growth plate
cell type: Chondrocytes
chondrocyte type: Hypertrophic
age: 1 day
|
| Treatment protocol |
Not Applicable.
|
| Growth protocol |
Hypertrophic chondrocytes from 1-day-old chicks; proliferative chondrocytes from 3-week-old chicks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RLT Lysis buffer followed by RNeasy Mini-Kit.
|
| Label |
biotin
|
| Label protocol |
Affymetrix One Cycle Target Labeling Kit according to the manufacturer’s instructions (Affymetrix, Inc., Santa Clara, CA).
|
| |
|
| Hybridization protocol |
Hybridized to Affymetrix GeneChip Chicken Genome Arrays for 16 h at 45°C; washing with Affymetrix GeneChip Fluidics Station 400.
|
| Scan protocol |
Affymetrix GCS3000 Scanner.
|
| Description |
Pooled isolated hypertrophic chondrocytes.
|
| Data processing |
Expression analysis was performed using GeneSifter software (VizXLab). CEL data were subjected to a Robust Multichip Average (RMA) to adjust for background and quantile normalization. Pairwise t-test analysis was performed to identify genes that are differentially expressed in proliferative versus hypertrophic chondrocytes. All genes were subjected to a filter of 3-fold change in gene expression, with a P value of 0.05 deemed significant. P values were adjusted for multiple testing comparisons using Benjamini and Hochberg method in order to control the false discovery rate.
|
| |
|
| Submission date |
Oct 14, 2009 |
| Last update date |
Oct 14, 2009 |
| Contact name |
Paul A Bartell |
| Organization name |
Penn State University
|
| Department |
Poultry Science
|
| Street address |
205 Henning Bldg.
|
| City |
University Park |
| State/province |
PA |
| ZIP/Postal code |
16802 |
| Country |
USA |
| |
|
| Platform ID |
GPL3213 |
| Series (1) |
| GSE18568 |
Chondrocyte Gene Expression in Proliferative and Hypertrophic Chondrocytes of Chick |
|
