|
| Status |
Public on Feb 15, 2010 |
| Title |
Smoker male study #42 |
| Sample type |
RNA |
| |
|
| Source name |
Smoker male buccal mucosa
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: buccal mucosa
smoking status: Smoker
gender: male
|
| Treatment protocol |
After topical anesthesia 5-mm punch biopsies were obtained from grossly normal appearing buccal mucosa.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with an RNeasy Mini Kit (Qiagen Inc) and stored at 80ºC until analysis.
|
| Label |
biotin
|
| Label protocol |
Biontinylated cRNAs were prepared according to the standard Affymetrix protocol from 1.5 ug total RNA (www.affymetrix.com).
|
| |
|
| Hybridization protocol |
Following fragmentation 10 ug of cRNA were hybridized for 16 h at 45ºC on Gene Chip HGU133 Plus 2 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from buccal mucosa biopsy
40 never smokers and 40 active smokers were recruited. Subjects were age- and gender- matched.
|
| Data processing |
The data were analyzed with Robust Multichip Average (RMA) algorithm within GeneSpring 7.2 Software (Agilent Technologies). Data from each chip were normalized for inter-array comparisons by first setting measurements of <0.01 to 0.01 and then normalizing to 50% of measurements taken from that array.
|
| |
|
| Submission date |
Sep 01, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Zeynep H. Gumus |
| E-mail(s) |
zeg2002@med.cornell.edu
|
| Organization name |
Cornell University
|
| Department |
Physiology and Biophysics
|
| Street address |
1300 York Ave
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE17913 |
Effects of Cigarette Smoke on the Human Oral Mucosal Transcriptome |
|
| Relations |
| Reanalyzed by |
GSE119087 |
