|
| Status |
Public on Jul 22, 2009 |
| Title |
miRNA expression in human tracheal smooth muscle, 68 yo, replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
human tracheal smooth muscle
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
age: 68 years old
race: unknown
cause of death: lung cancer
|
| Biomaterial provider |
Ambion (Austin, TX)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
miRNA was purified from 20 μg of total RNA fractionated using the flashPAGE system as directed by the manufacturer (Ambion, Austin, TX). The filter-based flashPAGE clean-up kit was used to concentrate the purified miRNA.
|
| Label |
Cy5
|
| Label protocol |
miRNA was then polyadenylated and labeled with Cy5 using the mirVana miRNA labeling kit
|
| |
|
| Hybridization protocol |
Arrays were hybridized and washed as directed according to the mirVana protocols
|
| Scan protocol |
Hybridized slides were scanned using a Perkin Elmer ScanArray 4000 Microarray Scanner. GenePix 4.1 software was used to quantify raw signal intensities.
|
| Description |
None.
|
| Data processing |
Local background as computed by GenePix was subtracted from each signal value. A noise threshold was computed using the empty wells and a noise threshold for each array was computed independently as the sum of the mean and ½ the standard deviation of the background-corrected positive signal levels of the 194 empty wells on each array. All spots with expression greater than this threshold were retained, and the remaining set of per-array replicates of each miRNA was examined for outliers based on the coefficient of variation. Replicated spots were then averaged, and averaged spot intensities were normalized per array by division of the median array signal.
|
| |
|
| Submission date |
Jun 10, 2009 |
| Last update date |
Jul 21, 2009 |
| Contact name |
Cherie A Singer |
| E-mail(s) |
csinger@medicine.nevada.edu
|
| Organization name |
University of Nevada School of Medicine
|
| Department |
Pharmacology MS318
|
| Street address |
1664 N. Virginia St
|
| City |
Reno |
| State/province |
NV |
| ZIP/Postal code |
89557 |
| Country |
USA |
| |
|
| Platform ID |
GPL5106 |
| Series (1) |
| GSE16586 |
miRNA expression in human tracheal smooth muscle |
|
