|
| Status |
Public on Jun 07, 2012 |
| Title |
Patient PR57B |
| Sample type |
RNA |
| |
|
| Source name |
primary blood monocytes
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Blood monocytes
group: HIV.HCV
ethnicity: Black
age: 52
|
| Extracted molecule |
total RNA |
| Extraction protocol |
A total of 30ml blood was drawn and subjected to Ficoll seperation to obtain PBMCs. CD14+ monocytes were isolated from PBMC with CD14-conjugated magnetic bead. Total RNA was isolated from 1-2x10^6 monocytes with Qiagen Rneasy mini kit.
|
| Label |
Steptavidin Alexa Fluor-647
|
| Label protocol |
Half microgram of total RNA was amplified and labelled with Ambion MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification Kit (AM1790) using biotin-UTP.
|
| |
|
| Hybridization protocol |
Biotin labeled fragmented aRNA was sealed in the chamber of the microarray slide. Hybridized for 17 hours at 37C on a horizontal rocking platform at 300 rmp. The slides were then washed and stained with Steptavidin Alexa Fluor-647. The slides were washed after staining.
|
| Scan protocol |
The arrays were then scanned on a Axon GenePix 4000B Scanner with PMT 600, single color.
|
| Description |
GE Human Whole Genome
|
| Data processing |
The raw data were normalized with loess normalization method.
|
| |
|
| Submission date |
Jun 06, 2012 |
| Last update date |
Jun 07, 2012 |
| Contact name |
Bing Sun |
| E-mail(s) |
[email protected]
|
| Organization name |
San Francisco VA Medical Center
|
| Street address |
B1, R103, 4150 Clement St
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94121 |
| Country |
USA |
| |
|
| Platform ID |
GPL2895 |
| Series (1) |
| GSE38542 |
HIV/HCV coinfection activates a type 1 interferon response in monocytes that correlates with cognitive impairment |
|
