|
Status |
Public on Feb 02, 2015 |
Title |
15-06-005-1_Nonasthmatic |
Sample type |
RNA |
|
|
Source name |
PBMC
|
Organism |
Homo sapiens |
Characteristics |
asthma: FALSE subtype: non 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 |
|