|
| Status |
Public on Mar 20, 2024 |
| Title |
C6 |
| Sample type |
RNA |
| |
|
| Source name |
Airway basal cells from COPD subjects
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: Basal cells treated with vehicle
disease state: COPD
|
| Treatment protocol |
Basal cells were cultured in collagen coated 10 cm dishes in Bronchial Life medium (LifeLine Cell Technologies, Frederick, MD) until 80% confluent. Cells wereflow sorted based on the expression of basal cell marker nerve growth factor receptor and seeded in transwells at a density of 1 x 10^5/well. Cells were grown under submerged conditions in Bronchial Life medium until confluent (5 to 7 days), treated with 1 uM quercetin for 3 days. Cells were then harvested.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were washed once with PBS, lysed in TRIZOL and total RNA was isolated by using miRNeasy kit (Qiagen, Valencia, CA) involving DNAse treatment step.
|
| Label |
Biotin
|
| Label protocol |
Double stranded cDNA was synthesized from 2 µg of total RNA followed by clean up with GeneChip Sample Cleanup Module. Biotin-labeled cRNA was then synthesized by in vitro transcript reaction using GeneChip IVT labeling kit.
|
| |
|
| Hybridization protocol |
Purified and quantified cRNA was hybridized to affymetrix Human Gene ST 2.1 test chips and the microarrays were performed following instructions from the manufacturer.
|
| Scan protocol |
Peg Arrays were scanned using the Affymetrix GeneTitan system (software version 4.3.0.1592).
|
| Data processing |
The data were analyzed with Transcriptome Analysis Console (software version 4.0) using default analysis settings (Gene-Level Fold Change < -2 or > 2, Gene-Level p-value < 0.05, ebayes ANOVA method) and Gene Level RMA as normalization method.
|
| |
|
| Submission date |
Jan 11, 2024 |
| Last update date |
Mar 20, 2024 |
| Contact name |
Umadevi Sajjan |
| E-mail(s) |
uma.sajjan@temple.edu
|
| Phone |
2157077139
|
| Organization name |
Temple University
|
| Street address |
3500 N Broad street, 1157 MERB, 115, 1157 MERB,
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19140 |
| Country |
USA |
| |
|
| Platform ID |
GPL17692 |
| Series (1) |
| GSE253052 |
Quercetin regulates gene expression in airway basal cells obtained from pateints with chronic obstructive pulmonary diesease |
|
