|
| Status |
Public on Feb 18, 2017 |
| Title |
knock out exposed to cigarette smoke replicate 5 |
| Sample type |
RNA |
| |
|
| Source name |
Whole lung homogenate
|
| Organism |
Mus musculus |
| Characteristics |
genotype: KO Mmp28-/-
|
| Treatment protocol |
Age- and gender- matched C57BL/6 and Mmp28-/- (on a C57BL/6 background) mice were used for all experiments. At 7-9 weeks, mice were exposed to cigarette smoke from University of Kentucky 3R4F Reference Brand cigarettes using a JB-2082 cigarette smoke machine (CH Technologies). The smoke exposures were three hours in duration for five days per week at a concentration of 250 tpm/m3 for a total of 3 months. Controls were kept in the same facility and exposed to room air within a similar chamber.
|
| Growth protocol |
None
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from mouse lung homogenates using Rneasy Mini Kit (Qiagen, Valencia, CA)
|
| Label |
Biotin
|
| Label protocol |
High quality RNA samples were converved to cDNA and biotin-labaled
|
| |
|
| Hybridization protocol |
Ambion’s Illumina TotalPrep RNA Amplification kit
|
| Scan protocol |
Illumina iScan system
|
| Data processing |
Microarray data was assessed for quality, followed by background adjustment, variance stabilization and quantile normalization using the Bioconductor package lumi.
|
| |
|
| Submission date |
Jan 21, 2017 |
| Last update date |
Oct 19, 2022 |
| Contact name |
Sina Gharib |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Washington
|
| Department |
Medicine
|
| Street address |
850 Republican St.
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE93898 |
MMP28 is a key contributor to emphysema pathogenesis |
|
