|
| Status |
Public on Mar 07, 2017 |
| Title |
Human gastric cancer tissues 2 |
| Sample type |
RNA |
| |
|
| Source name |
Human gastric cancer tissues
|
| Organism |
Homo sapiens |
| Characteristics |
age: 66 years-old
gender: male
tissue: gastric poor differentiate adenocarcinoma with LN metastasis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from ten samples using RNAiso Plus Reagent (TaKaRa, Japan) and then processed seperately.
|
| Label |
Cy5
|
| Label protocol |
The cDNA synthesis and antisense RNA (aRNA) amplification were conducted using Amino Allyl MessageAmp II aRNA Amplification Kit (Ambion, USA). The modified nucleotide, 5-(3-aminoallyl)-UTP (aaUTP) was incorporated into the amplified aRNA during the in vitro transcription with T7 RNA to form amino allyl-aRNA (aa-aRNA). The aa-aRNA was readily labeled with amine-reactive N-hydroxysuccinimide (NHS) ester of fluorescent dyes (Cy5-NHS).
|
| |
|
| Hybridization protocol |
Ten samples were hybridized to ten chips of CCDTM-miRNA850-version 4p1.4 of NIH Clinical Center separately.
|
| Scan protocol |
Ten chips were scanned into images in TIF format using the Agilent G2505C Microarray Scanner System (Agilent Technology, USA).
|
| Description |
CCDTM-miRNA850-version 4p1.10
T_2_GC
|
| Data processing |
Images were read into gene expression data (numerical values) in GPR format using the software GenePix Pro v4.1.1.44 (Axon Instruments, CA). These gene expression data were normalized and further analyzed to determine the significantly differentially expressed (DE) genes between the treatment group and the control group using the software Rosetta Resolver System v7.2 (Rosetta Biosoftware, USA). All the DE gene satisfied both the P-value < 0.05 and the absolute log2 fold-change >= 1. DNA probes were annotated by the software Annotation ROA2 r1.0 (Phalanx Biotech, China) with two databases NCBI RefSeq r65 and Ensembl r76 cDNA sequences Rnor_5.0 annotations.
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| |
|
| Submission date |
Mar 07, 2017 |
| Last update date |
Mar 07, 2017 |
| Contact name |
Shan Gao |
| E-mail(s) |
gao_shan@mail.nankai.edu.cn
|
| Organization name |
Nankai University
|
| Street address |
No 94, weijin road
|
| City |
Tianjin |
| ZIP/Postal code |
300071 |
| Country |
China |
| |
|
| Platform ID |
GPL16414 |
| Series (1) |
| GSE94882 |
microRNA expression profiling among WTX low human gastric cancer tissues and matched adjacent WTX high normal gastric mucosa |
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