|
| Status |
Public on Feb 22, 2008 |
| Title |
mGEP cells infected with Kx2, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Mouse gastric epithelial progenitor cells, infected with H. pylori isolate Kx2 (cancer-associated)
|
| Organism |
Mus musculus |
| Characteristics |
Cells grown in T75 cell culture flasks
|
| 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 |
Gene expression data from mouse gastric epithelial progenitor cells, infected with H. pylori isolate Kx2 (cancer-associated)
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
|
| |
|
| Submission date |
Jan 24, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Marios Giannakis |
| Organization name |
Washington University in Saint Louis
|
| Department |
Developmental Biology
|
| Lab |
Lab of Dr. Jeffrey I. Gordon
|
| Street address |
4444 Forest Park Blvd.
|
| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63108 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE10262 |
Expression data from Helicobacter pylori-infected mouse gastric epithelial progenitor and non-progenitor cells. |
|
| Relations |
| Reanalyzed by |
GSE119085 |
