|
| Status |
Public on Sep 01, 2016 |
| Title |
BMDM infected 24h MMP10KO rep3 |
| Sample type |
RNA |
| |
|
| Source name |
BMDM
|
| Organism |
Mus musculus |
| Characteristics |
tissue: bone marrow
cell type: macrophages
genotype: Mmp10-/-
|
| Treatment protocol |
BMDM that had been exposed only to standard culture medium for 7 days were designated as M0, and basal expression levels were determined using RNA from these cells. For post-infection transcriptional analysis, M0 cells were exposed to P. aeruginosa strain K at an MOI of 5:1 for 1 h, after which infection media was aspirated, and cells were rinsed twice with PBS. The cells were then cultured in medium containing 75 μg/ml gentamicin, 100 IU/ml penicillin, and 100 μg/ml streptomycin, until RNA was collected at 6 h or 24 h after the end of the infection period.
|
| Growth protocol |
Bone marrow cells were differentiated to macrophages by 7 days of culture in RPMI media supplemented with 10% FBS and 20% conditioned media from L929 cells.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol extraction followed by cleanup with RNeasy Mini Kit (Qiagen, Valencia, CA)
|
| Label |
Biotin
|
| Label protocol |
Affymetrix standard protocol
|
| |
|
| Hybridization protocol |
Affymetrix standard protocol
|
| Scan protocol |
GeneChip Operating System (GCOS)
|
| Data processing |
RMA algorithm with quantile normalization and background correction
|
| |
|
| Submission date |
Feb 22, 2016 |
| Last update date |
Sep 01, 2016 |
| Contact name |
Ryan McMahan |
| E-mail(s) |
ryanm23@uw.edu
|
| Organization name |
University of Washington
|
| Street address |
850 Republican, S-320
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL16570 |
| Series (1) |
| GSE78175 |
Transcriptional profile of WT and Mmp10-/- bone marrow-derived macrophages after infection with Pseudomonas aeruginosa |
|
