|
| Status |
Public on Dec 31, 2013 |
| Title |
CD4+CD25- T cells in 2% O2 proband 3 |
| Sample type |
RNA |
| |
|
| Source name |
CD4+CD25- T cells
|
| Organism |
Homo sapiens |
| Characteristics |
proband age: 20-38 years
proband sex: male
bmi: body mass index < 26
tissue: peripheral blood
cell type: CD4+CD25- T cells
treatment: 2% O2
subject: proband 3
|
| Treatment protocol |
CD4+CD25- or CD4+CD25high T cells were cultured in either 20% O2 (normoxia) or 2% O2 (hypoxia) in 200 microliter of X-VIVO 15, 200.000 cells/well in a 96-well round bottom plate without any further stimulation.
|
| Growth protocol |
CD4+CD25- or CD4+CD25high T cells were cultured in either 20% O2 (normoxia) or 2% O2 (hypoxia) in 200 microliter of X-VIVO 15, 200.000 cells/well in a 96-well round bottom plate without any further stimulation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated sense-strand DNA was generated from 100 ng of total RNA with WT Sense Target Labeling and Control Reagent (Affymetrix).
|
| |
|
| Hybridization protocol |
Sense-strand DNA was hybridized on Affymetrix GeneChip Human Gene 1.0 ST Array.
|
| Scan protocol |
GeneChips were scanned using GeneChip Scanner 3000 System.
|
| Description |
CD4+CD25- T cells cultivated for 4h in 2% O2 at 37°C, proband 3
|
| Data processing |
Microarray data were analyzed with Affymetrix GeneChip Command Console Software (Affymetrix). The advanced analysis was done with R (version 2.9) with package limma. Data preprocessing steps included RMA via usage of the R packages affy and probe summarization via the brainarray-cdf file version 12.1.0.
|
| |
|
| Submission date |
Nov 02, 2012 |
| Last update date |
Dec 31, 2013 |
| Contact name |
Gabriela Salinas |
| E-mail(s) |
[email protected]
|
| Organization name |
Universitaetsmedizin Goettingen
|
| Department |
Department of Pathology
|
| Lab |
NGS Integrative Genomics
|
| Street address |
Kreuzbergring 57
|
| City |
Goettingen |
| State/province |
Lower-Saxony |
| ZIP/Postal code |
37075 |
| Country |
Germany |
| |
|
| Platform ID |
GPL16239 |
| Series (1) |
| GSE41999 |
Reduced Treg suppressive function and HIF-1α expression in hypoxia |
|
