|
| Status |
Public on Mar 07, 2014 |
| Title |
normal tissue from patient 228 |
| Sample type |
RNA |
| |
|
| Source name |
normal tissue from patient 228
|
| Organism |
Homo sapiens |
| Characteristics |
patient id: ec228
age: 57
Sex: male
tobacco use: yes
alcohol use: no
tumor loation: lower
tumor grade: moderately
t stage: T4
n stage: N2
tnm stage: III
arrhythmia: yes
pneumonia: yes
anastomotic leak: no
adjuvant therapy: yes
death at fu: no
survival time(months): 60.6333333333333
disease state: esophageal squamous cell carcinoma
tissue: normal tissue from patient 228
|
| Treatment protocol |
N/A
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the specimens using Trizol reagent (Invitrogen) and purified with mirVana miRNA Isolation Kit (Ambion, Austin, TX, USA). RNA purity and concentration were determined from OD260/280 readings using spectrophotometer (NanoDrop ND-1000) and RNA integrity was determined by 1% formaldehyde denaturing gel electrophoresis.
|
| Label |
Cy3
|
| Label protocol |
cDNA labeled with a fluorescent dye (Cy5 and Cy3-dCTP) was produced by Eberwine’s linear RNA amplification method and subsequent enzymatic reaction.
|
| |
|
| Hybridization protocol |
The labeled RNA was purified and hybridized to microarrays according to the Agilent manufacturer's instructions.
|
| Scan protocol |
Images were scanned with the Agilent microarray scanner (Agilent), gridded, and analyzed using Agilent feature extraction software version 10.10.
|
| Description |
normal tissue from patient 228
|
| Data processing |
The lncRNA+mRNA array data were analyzed for data summarization, quantile normalization and quality control by using the GeneSpring software V11.5 (Agilent).
|
| |
|
| Submission date |
Dec 23, 2013 |
| Last update date |
Mar 07, 2014 |
| Contact name |
Jiagen Li |
| E-mail(s) |
jiagen.li@hotmail.com
|
| Organization name |
Cancer Institute, CAMS
|
| Street address |
17 Panjiayuannanli Chaoyang District
|
| City |
Beijing |
| ZIP/Postal code |
100021 |
| Country |
China |
| |
|
| Platform ID |
GPL18109 |
| Series (2) |
| GSE53624 |
LncRNA profile study reveals a three-lncRNA signature associated with the survival of esophageal squamous cell carcinoma patients (original) |
| GSE53625 |
LncRNA profile study reveals a three-lncRNA signature associated with the survival of esophageal squamous cell carcinoma patients |
|
