|
| Status |
Public on Oct 27, 2009 |
| Title |
Mouse non-progenitor gastric epithelial cells, infected with H.pylori strain 488_Kx2 replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
Mouse non-progenitor gastric epithelial cells, infected with H.pylori strain 488_Kx2 (gastric cancer associated)
|
| Organism |
Mus musculus |
| Characteristics |
treatment: Cells grown in T75 cell culture flasks
cell type: Mouse non-progenitor gastric epithelial cells
age: 24 hrs
|
| Treatment protocol |
After 24h of infection, medium and non-attached bacteria were washed off and the mouse cells harvested by trypsinization (5mins at 37C). Following neutralization with ice-cold medium, and a PBS wash, cells were flash frozen in liquid nitrogen
|
| Growth protocol |
Cells were grown to 70% confluence in RPMI 1640 medium supplemented with 10% FBS at 37C
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Qiagen RNeasy mini-prep kit.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 12 ug total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 25 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430_2. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GS300
|
| Description |
Mouse non-progenitor gastric epithelial cells, infected with H.pylori strain 488_Kx2 (gastric cancer associated)
|
| Data processing |
The data were normalized using the justRMA() function [with default parameters] from the Bioconductor R package.
|
| |
|
| Submission date |
Jun 02, 2009 |
| Last update date |
Oct 27, 2009 |
| Contact name |
Jeremiah J Faith |
| E-mail(s) |
faithj@wustl.edu
|
| Organization name |
Washington University in St. Louis
|
| Street address |
Campus Box 8510
|
| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63108 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (2) |
| GSE16390 |
Response of gastric epithelial progenitors to H. pylori isolates from Swedish patients with chronic atrophic gastritis 1 |
| GSE16440 |
Response of gastric epithelial progenitors to H. pylori isolates from Swedish patients with chronic atrophic gastritis |
|
