|
| Status |
Public on Jun 14, 2013 |
| Title |
GIST_RNA_31 |
| Sample type |
RNA |
| |
|
| Source name |
Stomach_GIST_high risk
|
| Organism |
Homo sapiens |
| Characteristics |
gender: female
age: 63
tissue type: Gastrointestinal stromal tumor (GIST)
genotype: KIT gene with insertion mutation, D572-587NPTQLPYDHKWEFPRN genotype
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tumor tissues were extracted from the fresh tissue by QiagenRNeasy Mini KIT (Qiagen, Crawley, UK) according to the manufacturer’s instructions.
|
| Label |
Cy3
|
| Label protocol |
Total RNA (10-200ng) was reverse transcribed into cDNA by incorporating a T7 promoter primer prior to the generation of fluorescent cRNA using an Agilent Quick Amp Labeling KIT (Agilent Technologies).
|
| |
|
| Hybridization protocol |
The hybridization was incubated in Agilent SureHyb chambers for 17 hr in a Rotisserie Hybridization Oven set to 65℃ and rotating at 10 rpm.
|
| Scan protocol |
Arrays were scanned using an Agilent Technologies Scanner G2505C US84703596 (Agilent Technologies, Inc).
|
| Description |
KIT gene with insertion mutation, D572-587NPTQLPYDHKWEFPRN genotype
|
| Data processing |
Extracted data analyzed with Agilent Genespring GX software 11.5 (Agilent Technologies) and R-programming (Variance Stabilization and Normalization, the VSN package)
|
| |
|
| Submission date |
Jun 13, 2013 |
| Last update date |
Jun 14, 2013 |
| Contact name |
Kyoung-Mee Kim |
| Organization name |
Samsung Medical Center
|
| Street address |
#50 Irwon-dong
|
| City |
Seoul |
| ZIP/Postal code |
135-710 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL6480 |
| Series (2) |
| GSE47911 |
Gene expression signatures in gastric gastrointestinal stromal tumors (GISTs) |
| GSE47913 |
Integrated array CGH and expression profiling revealed candidate biomarkers in gastrointestinal stromal turmor |
|
