|
| Status |
Public on Dec 22, 2011 |
| Title |
GT1 infected Mouse 1 |
| Sample type |
RNA |
| |
|
| Source name |
Female outbred
|
| Organism |
Mus musculus |
| Characteristics |
mouse strain: CD1
gender: female
age: 6-8 weeks
tissue: Peritoneal lavage
toxplasma gondii strain: GT1
|
| Growth protocol |
Mice were infected intraperitoneally with 500 tachyzoites of either GT1, PTG or CTG. On day 5 mice were sacrificed and peritoneal lavage was collected in 5ml PBS. Peritoneal lavage was centrifuged and supernatant removed. Pellet was resuspended in 1 ml RNAlater, incubated at 4° for 1 hr, then stored in -70° until use.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples stored in RNAlater were centrifuged at 12,000 rpm for 10 min. Supernatant removed. RNA was isolated using the RNeasy Plus Mini Kit (Qiagen), according to the manufacturer’s instructions.
|
| Label |
Biotin
|
| Label protocol |
RNA samples were processed according to the Affymetrix protocol for One-Cycle DNA synthesis using a Message Amp II-Biotin Enhanced Kit
|
| |
|
| Hybridization protocol |
Five micrograms of fragmented cRNA was hybridized to the GeneChip Mouse Gene 1.0 st array and scanned at UT Affymetrix core facility
|
| Scan protocol |
Arrays were immediately scanned using the Affymetrix 7G scanner
|
| Data processing |
The raw data from arrays were normalized with with Robust Multichip Algorithm (GC RMA) using Partek® Genomics SuiteTM software. A two way analysis of variance (ANOVA) was used to detect genes with statistically significant expression levels between T. gondii infected mice and the uninfected controls.
|
| |
|
| Submission date |
Dec 13, 2011 |
| Last update date |
Dec 22, 2011 |
| Contact name |
Rachel Hill |
| E-mail(s) |
rmcmull1@utk.edu
|
| Organization name |
University of Tennessee Knoxville
|
| Department |
Microbiology
|
| Lab |
Chunlei Su
|
| Street address |
1401 W. Cumberland Ave
|
| City |
Knoxville |
| State/province |
TN |
| ZIP/Postal code |
37996 |
| Country |
USA |
| |
|
| Platform ID |
GPL10740 |
| Series (1) |
| GSE34416 |
Differential gene expression in mice infected with distinct Toxoplasma gondii strains |
|
