|
| Status |
Public on Sep 27, 2017 |
| Title |
T_H008 lncRNA |
| Sample type |
RNA |
| |
|
| Source name |
tissue
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction by Trizol method. RNA purity was checked by optical density of NanoDrop ND-1000 and agarose electrophoresis with the result of A260/A280≧1.8, A260/A230≧ 1.5, no gDNA contamination. RNA integrity was measured by Agilent RNA 6000 Nano Assay (RIN≧6).
|
| Label |
Cy5
|
| Label protocol |
aaRNAs were amplified using Amino Allyl MessageAmp™ II aRNA Amplification Kit (Ambion #AM1753, CA, USA) from 1μg total RNA and directed labeled by NHS-CyDye (Cy5, Amershan) to uridine (dUTP).
|
| |
|
| Hybridization protocol |
The pre-hybridization of HOA v7 arrays were rehydrated by 100% ethanol following with deionized water. The slides were pre-hybridized with 5x SSPE, 0.1% SDS and 1% BSA at 42℃ for 2 hour. After the pre-hybridization, Cy5-labeled aaRNA was hybridize on MOA v2 in duplication (two arrays for each sample) at 50℃ for 16 hour in the presentation of the Phalanx OneArray hybridization buffer.
|
| Scan protocol |
The arrays were scanned by Agilent G2505C scanner (635nm) and quantify the fluoresence intensity.
|
| Data processing |
The data processing was processed by Rosetta Resolver® System (Rosetta Biosoftware, USA). We filtered the spots in which flag=-50 within all arrays and control probes. Probes passed filter were normalized by median scaling to remove systemic effect, then combine the duplicate data by averaging their intensity value.
The Matrix value is normalized intensities. The pairwised comparison were performed by Rosetta Resolver® System error-weighted modeling to find significant diffrential expressed probes (log2 |Fold change| ≥ 1 and P < 0.05).
|
| |
|
| Submission date |
Sep 26, 2017 |
| Last update date |
Jan 23, 2018 |
| Contact name |
Jianjun Gu |
| E-mail(s) |
gujianjun@zzu.edu.cn
|
| Organization name |
Henan Provincial People's Hospital
|
| Street address |
No.7 Weiwulu
|
| City |
Zhengzhou |
| ZIP/Postal code |
450000 |
| Country |
China |
| |
|
| Platform ID |
GPL22449 |
| Series (1) |
| GSE104267 |
Predictive analysis of long non-coding RNA expression profiles in tumor and normal tissues from glioblastoma patients |
|
| Relations |
| Alternative to |
GSM2793872 (mRNA) |
