|
| Status |
Public on Jun 27, 2012 |
| Title |
COPD [20278_miRNA] |
| Sample type |
RNA |
| |
|
| Source name |
Lung tissue from smoker with COPD
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: COPD
fvc-group: 3
gold stage: 1
age: 62
gender (1=male, 2=female): 1
pkyrs: 40
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from frozen tissue samples using a freeze fracture protocol, followed by Trizol extraction and precipitation at -20ºC overnight to increase the yield of small RNAs. RNA integrity was determined by capillary electrophoresis on an Agilent 2100 Bioanalyzer. Only RNA with an integrity number $7 was used in the profiling studies.
|
| Label |
Cy3
|
| Label protocol |
miRNAs were labeled according to the manufacturer's instruction (Exiqon, Woburn, Massachusetts, USA)
|
| |
|
| Hybridization protocol |
The labelled miRNA probes were hybridized to the miRCURY LNA arrays v11.0 for 16h at 56ºC
|
| Scan protocol |
Hybridized slides were washed and scanned with ScanArray Express (Perkin Elmer)
|
| Description |
COPD
|
| Data processing |
miRNA expression data was consolidated by taking median value across replicated probes. Then, it was normalized by quantile method, and transformed in log2-scale
|
| |
|
| Submission date |
Jun 27, 2012 |
| Last update date |
Jun 27, 2012 |
| Contact name |
Ji-Hoon Cho |
| E-mail(s) |
jcho@systemsbiology.org
|
| Organization name |
Institute for Systems Biology
|
| Street address |
401 Terry Avenue North
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL7723 |
| Series (1) |
| GSE38974 |
Gene expression networks in COPD: microRNA and mRNA regulation |
|
