|
| Status |
Public on Jun 08, 2010 |
| Title |
MKN1 - 37 cell line study |
| Sample type |
RNA |
| |
|
| Source name |
gastric cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MKN1
cell type: gastric cancer
|
| Treatment protocol |
Cancer cell lines were grown as per GC cell lines were obtained either from commercial sources or collaborators and cultured as recommended
|
| Growth protocol |
Cancer cell lines were grown as per GC cell lines were obtained either from commercial sources or collaborators and cultured as recommended
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy mini spin columns (Qiagen) were used according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip® Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner GCS3000 7G.
|
| Description |
Series of 37 (unique) gastric cancer cell lines
|
| Data processing |
The data were analyzed with R version 2.9.0, package affy. Data processing was performed by RMA normalization and Log 2 transformed.
|
| |
|
| Submission date |
Jun 07, 2010 |
| Last update date |
Jun 07, 2010 |
| Contact name |
Chia-Huey Ooi |
| Organization name |
F. Hoffmann-La Roche Ltd.
|
| Street address |
Grenzacherstrasse 124
|
| City |
Basel |
| ZIP/Postal code |
4070 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE15460 |
Oncogenic Pathway Combinations Predict Clinical Prognosis in Gastric Cancer |
| GSE22183 |
GEMINI (Gastric Encyclopedia of Molecular Interactions and Nodes for Intervention) : 37 unique Gastric cancer cell lines |
|
| Relations |
| Reanalysis of |
GSM387726 |
