|
| Status |
Public on Sep 01, 2013 |
| Title |
YG54T |
| Sample type |
RNA |
| |
|
| Source name |
primary gastric adenocarcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
gender: M
age: 52
histology: Diffuse
Stage: 2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from tissues with mirVana RNA Isolation labeling kit (Ambion Inc) according to the manufacturer's protocol. RNA quality and integrity were confirmed by ExperionTM Automated Electrophoresis System (BIO-RAD)
|
| Label |
biotin
|
| Label protocol |
200 ng of total RNA was converted to cDNA. A single miRNA-specific oligo (MSO) was used to assay each miRNA. All MSOs were hybridized to the sample in parallel, and followed by a solid-phase primer extension step. The universal PCR step created fluorescently labeled products identifiable by their unique MSO sequence. The address sequence from each MSO was used to hybridize specific miRNA products to specific locations on the BeadArrayTM substrate for readout.
|
| |
|
| Hybridization protocol |
Labeled, material (15ul per array) was hybridized to the Illumina Human v2 MicroRNA expression BeadChip according to the Manufacturer's instructions (Illumina, Inc., San Diego, CA).
|
| Scan protocol |
Chips were scanned with an Illumina BeadArray Reader (Illumina)
|
| Data processing |
Signal intensity values were analyzed using BeadStudio version 3.1.3. We set a cut-off detection p-value of 0.01 to determine whether a probe was significantly detected. Thereafter the data of 410 probes was analyzed . The data were normalized using quantile normalization in the R language environment and log2 transformed.
|
| |
|
| Submission date |
Jan 12, 2011 |
| Last update date |
Sep 01, 2013 |
| Contact name |
Jae Yun Lim |
| Organization name |
Gangnam Severance Hospital, Yonsei University
|
| Department |
Medical Oncology
|
| Street address |
211 Eonju-ro, Gangnam-gu
|
| City |
Seoul |
| ZIP/Postal code |
135-720 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL8179 |
| Series (1) |
| GSE26595 |
MicroRNA expression of primary gastric adenocarcinoma compared to non-cancer gastric tissue |
|
