|
| Status |
Public on Aug 30, 2011 |
| Title |
BMM infected with CDC1551 24h rep-3 |
| Sample type |
RNA |
| |
|
| Source name |
mouse bone marrow derived macrophages
|
| Organism |
Mus musculus |
| Characteristics |
strain: B6D2F1
cell type: macrophage (differentiated for 7 days)
|
| Treatment protocol |
The cells isolated from mouse femurs were differentiated in DMEM with 10% FBS supplemented with 20% L929 for 7 days
|
| Growth protocol |
Differentiated BMM were infected with Mtb at the moi of 5 in triplicate for 3 hrs and cells were harvested at 6 and 24 hr after infection to isolate total RNA..
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol method was used for RNA extraction. DNaseI was treated to get rid of remaining DNA.
|
| Label |
biotin
|
| Label protocol |
300 ng of total RNA was processed using GeneChip WT labeling protocol, version 4
|
| |
|
| Hybridization protocol |
After fragmentation, labeled single stranded DNA was hybridized unto mouse ST 1.0 array.
|
| Scan protocol |
Genechip was scanned using Affymetrix Genechip Scanner 7G Plus
|
| Description |
Gene expression data of Mtb-infected cells
CDC 24h-3
|
| Data processing |
We used the RMA (Robust Multiarray Analysis) method to normalize and to summarize the probe-level intensity measurement from mouse Affymetrix ST 1.0 chip using Partek software.
|
| |
|
| Submission date |
Aug 29, 2011 |
| Last update date |
Aug 30, 2011 |
| Contact name |
Mi-Sun Koo |
| E-mail(s) |
koomi@umdnj.edu
|
| Phone |
9738543226
|
| Fax |
972854322
|
| Organization name |
University of Medicine and Dentistry of New Jersey
|
| Department |
Public Health Research Institute
|
| Street address |
225 Warren Street, W250Q
|
| City |
Newark |
| State/province |
NJ |
| ZIP/Postal code |
07103 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE31734 |
Mtb-mediated host transcriptional reponse is strain-specific |
|
