|
| Status |
Public on Mar 09, 2017 |
| Title |
PCa_BB5 |
| Sample type |
RNA |
| |
|
| Source name |
Prostate cancer
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: prostate adenocarcinoma
gender: male
population: Caucasian
|
| Treatment protocol |
NA
|
| Growth protocol |
NA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated following standard TriReagent protocol (Sigma-Aldrich) and DNase treatment was performed (TURBO DNase-free, Life Technologies). Total RNA quality and quantity were checked by means of Bioanalyzer (Agilent Technologies) and NanoDrop ND-1000 Spectrophotometer (Thermo Scientific), respectively.
|
| Label |
Cy3
|
| Label protocol |
MiRNA expression profiling was carried out using the one-colour labelling method. Labelling, hybridization, washing and slide scanning were performed following the manufacturer's protocol (Agilent Technologies). Briefly, 100 ng of total RNA were dephosphorylated and denaturated; then a ligation and labeling step with Cy3 was performed.
|
| |
|
| Hybridization protocol |
Samples were hybridized to oligonucleotide glass arrays with sequences representing probes for 866 human and 89 human viral miRNAs from the Sanger miRBase (release 12.0) (Human miRNA Microarray V3, Agilent Technologies). After 20 hours, slides were washed and scanned.
|
| Scan protocol |
Slides were scanned with the dual-laser Agilent scanner G2505B.
|
| Description |
Prostate adenocarcinoma from Caucasian men.
|
| Data processing |
The LIMMA (LInear Models for Microarray Analysis) package was used to analyze miRNA expression profiles in normal prostates and prostate cancer tissues. Raw intensity values were background subtracted (method = subtract with an offset of 20) and normalized using the quantile method. Duplicated probes were averaged.
|
| |
|
| Submission date |
Aug 05, 2014 |
| Last update date |
Dec 18, 2019 |
| Contact name |
Paola Ostano |
| Organization name |
Fondazione Edo ed Elvo Tempia
|
| Street address |
via Malta 3
|
| City |
Biella |
| ZIP/Postal code |
13900 |
| Country |
Italy |
| |
|
| Platform ID |
GPL13264 |
| Series (2) |
| GSE60117 |
miRNA expression profiling of prostate cancer (PCa) and normal prostatic samples |
| GSE60371 |
miR-424 induces COP1 silencing and STAT3 activation in prostate cancer: a novel miRNA-dependent axis driving tumor progression |
|
| Relations |
| Reanalyzed by |
GSM4224464 |
