|
| Status |
Public on Feb 02, 2015 |
| Title |
15-02-015-3_Asthmatic |
| Sample type |
RNA |
| |
|
| Source name |
PBMC
|
| Organism |
Homo sapiens |
| Characteristics |
asthma: TRUE
subtype: lung_function
cell type: PBMC
|
| Treatment protocol |
N/A
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Peripheral blood mononuclear cells (PBMCs) were isolated from whole blood using the Ficoll density gradient separation. DNA and RNA were isolated simultaneously from the PBMCs using the AllPrep DNA/RNA kit (Qiagen, Germantown, MD), DNA and RNA samples were quantified and purity assessed using a NanoDrop spectrophotometer (Thermo Scientific, Wilmington, DE). RNA integrity was determined using the Bioanalyzer (Agilent, Santa Clara, CA).
|
| Label |
Cy3
|
| Label protocol |
RNA was reverse transcribed and amplified using the TransPlex Whole Transcriptome Amplification (WTA) Kit (Sigma-Aldrich, St. Louis, MO) followed by Cy3 labeling using Nimblegen one-color labeling kits.
|
| |
|
| Hybridization protocol |
Nimblegen-recommended protocol on the Maui 12-bay hyb station.
|
| Scan protocol |
Nimblegen-recommended settings on the Nimblegen’s scanner (Roche Nimblegen, Madison, WI)
|
| Data processing |
Images were processed using RMA normalization with Nimblegen’s DEVA software.
|
| |
|
| Submission date |
Sep 10, 2012 |
| Last update date |
Feb 02, 2015 |
| Contact name |
David Schwartz |
| E-mail(s) |
DAVID.SCHWARTZ@ucdenver.edu
|
| Phone |
303-724-1783
|
| Organization name |
University of Colorado, Anschutz Medical Campus
|
| Department |
Medicine
|
| Street address |
Anschutz Medical Campus
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80045 |
| Country |
USA |
| |
|
| Platform ID |
GPL16025 |
| Series (2) |
| GSE40732 |
DNA Methylation Changes and Childhood Asthma in the Inner City [gene expression] |
| GSE40736 |
DNA Methylation Changes and Childhood Asthma in the Inner City |
|
