|
| Status |
Public on May 22, 2012 |
| Title |
Ex-vivo CD4+ T cells Chronic HIV D |
| Sample type |
RNA |
| |
|
| Source name |
Unstimulated ex-vivo isolated CD4+ T cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD4+ T cells
disease state: Chronic HIV
|
| Treatment protocol |
Cells were separated from PBMCs and not stimulated in any way prior to RNA extraction
|
| Growth protocol |
CD4+ T cells isolated from PBMCs using MACS CD4+ positive selection. PBMCs were frozen down from peripheral blood using Ficoll Paque density centrifugation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from CD4+ T cells using Qiagen miRNeasy kit; RNA quality was checked using a spectrophotometer and an Agilent Bioanalyzer Nano Chip and Small RNA chip
|
| Label |
Cy3
|
| Label protocol |
100ng total RNA used, dephosphorylated and labeled with Cy3 as per manufacturer's recommendations
|
| |
|
| Hybridization protocol |
Cy3 labelled RNA was hybridized to the slide overnight in rotating incubator at 37 degrees celsius
|
| Scan protocol |
Scanning was performed using an Agilent G2505B scanner
|
| Description |
100ng total RNA put onto Agilent microarray
|
| Data processing |
22 arrays were imported into GeneSpring GX 10 and pre-processed using default settings: threshold raw signals to 1.0, followed by log-base-2 transformation, then percentile shift normalization, setting the 75th percentile on each array to 0.
|
| |
|
| Submission date |
Sep 08, 2010 |
| Last update date |
May 22, 2012 |
| Contact name |
Sanjay Swaminathan |
| E-mail(s) |
[email protected]
|
| Phone |
+61283824943
|
| Fax |
+61283824967
|
| Organization name |
St Vincent's Centre for Applied Medical Centre
|
| Lab |
Immunovirology Laboratory
|
| Street address |
405 Liverpool St
|
| City |
Darlinghurst |
| State/province |
New South Wales |
| ZIP/Postal code |
2010 |
| Country |
Australia |
| |
|
| Platform ID |
GPL8227 |
| Series (1) |
| GSE24022 |
miRNA profiling of CD4+ T cells in chronically infected HIV-1 patients, LTNPs and healthy controls |
|
