|
| Status |
Public on Jul 10, 2012 |
| Title |
Blood Baseline day -21 Animal ID FFQ |
| Sample type |
RNA |
| |
|
| Source name |
Blood Baseline day -21
|
| Organism |
Cercocebus atys |
| Characteristics |
tissue: peripheral whole blood
infection status: SIV-positive
treatment: Baseline
time: day -21
subject: Animal ID FFQ
|
| Treatment protocol |
SIV+ Sooty mangabey monkeys were injected with 500,000 units subcutaneously with recombinant rhesus macaque IFNalpha2-IGFC fusion protein every week for 16 weeks.
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Whole blood was drawn into PAXgene tubes and stored at -80, samples were purified using standard Paxgene purification with QIAshredder columns and on-column DNAse digestion.
|
| Label |
biotin
|
| Label protocol |
0.5 micrograms of total RNA was labeled using a modified version of the Affymetrix IVT Express protocol, incorporating blocking PNA oligos specific for rhesus & mangabey hemoglobin into the initial reverse transcription step, as reported in Taaffe et al. 2009 J Med Primatol and Bosinger et al. J Clin Invest 2009.
|
| |
|
| Hybridization protocol |
Following fragmentation, 20 micrograms of cRNA were diluted into 300 microlitres of hybridization cocktail, with 200 microlitres hybridized for 16 hr at 45 C on GeneChip Rhesus Macaque Genome Array in Affymetrix Hybridization Oven 640. 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 whole blood of SIV-infected sooty mangabey monkeys before injection of interferon alpha
|
| Data processing |
Data from .CEL files were uploaded to the RACE Bioconductor utility to perform RMA normalization. RACE normalized files were uploaded and analyzed using Partek Genomics Suite.
|
| |
|
| Submission date |
Jan 31, 2012 |
| Last update date |
Jul 10, 2012 |
| Contact name |
Gregory K Tharp |
| E-mail(s) |
[email protected]
|
| Phone |
404-727-7797
|
| Organization name |
Yerkes National Primate Research Center
|
| Department |
Developmental and Cognitive Neuroscience
|
| Lab |
Genomics Core
|
| Street address |
954 Gatewood Dr
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30329-4208 |
| Country |
USA |
| |
|
| Platform ID |
GPL3535 |
| Series (1) |
| GSE35460 |
Gene expression profiling data from sooty mangabeys treated with interferon alpha |
|
