|
| Status |
Public on Feb 04, 2014 |
| Title |
Atrophy, corpus 48C |
| Sample type |
RNA |
| |
|
| Source name |
Human stomach
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: atrophy
stomach region: corpus
tissue: stomach
|
| Treatment protocol |
Biopsies from the antrum and corpus mucosa were obtained during endoscopy and stored at -70 °C
|
| Growth protocol |
-
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The tissue was disrupted using a glass mortar and pestle and added to a QIAshredder column (Qiagen, Hilden, Germany) before RNA extraction to ensure proper lysis of the tissue. Total RNA was extracted using the RNEasy Mini Kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
cRNA amplification and biotin labeling from 500 ng of total RNA were performed using Illumina® TotalPrep RNA amplification kit (Ambion, Inc., Austin, TX)
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 6
|
| Data processing |
The data were normalised using quantile normalisation with Lumi package in R
|
| |
|
| Submission date |
Feb 18, 2011 |
| Last update date |
Feb 04, 2014 |
| Contact name |
Intawat Nookaew |
| E-mail(s) |
inookaew@uams.edu
|
| Organization name |
University of Arkansas for Medical Sciences
|
| Department |
Department of Biomedical Informatics
|
| Street address |
4301 W Markham St
|
| City |
Little Rock |
| ZIP/Postal code |
72205 |
| Country |
USA |
| |
|
| Platform ID |
GPL6255 |
| Series (1) |
| GSE27411 |
Transcriptional analysis reveals the molecular details of atrophic gastritis in Helicobacter pylori infected corpus mucosa |
|
