|
| Status |
Public on Mar 05, 2013 |
| Title |
Patient V3 fibroblasts IFNa, biological rep4 |
| Sample type |
RNA |
| |
|
| Source name |
Dermal fibroblasts from patient V3, IFNa
|
| Organism |
Homo sapiens |
| Characteristics |
genotype/variation: STAT2 deficient
cell type: primary dermal fibroblasts
treatment: interferon-alpha (IFNa)
|
| Treatment protocol |
Cells were either treated with 1,000 U/ml interferon-alpha for 10 hrs or given a mock treatment.
|
| Growth protocol |
Patient (V:3) and control fibroblasts were cultured in DMEM containing 10% FCS in 24-well plates.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was isolated using the QIAgen RNeasy Plus kit protocol.
|
| Label |
biotin
|
| Label protocol |
Standard Affymetrix labeling procedure.
|
| |
|
| Hybridization protocol |
Standard Affymetrix hybridization and wash procedure FS450_0002.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner G3000 7G using the AGCC software tool.
|
| Description |
Gene expression data from patient V3 fibroblasts treated with 1,000U/ml interferon-alpha for 10h.
|
| Data processing |
R/Bioconductor using RMA normalization, non-specific expression level filter of 50 applied and empirical Bayes statistical test with Benjamini-Hochberg FDR adjustment performed.
|
| |
|
| Submission date |
Oct 31, 2012 |
| Last update date |
Mar 05, 2013 |
| Contact name |
Paul Dickinson |
| E-mail(s) |
Paul.Dickinson@ed.ac.uk
|
| Phone |
0131 2426287
|
| Organization name |
University of Edinburgh
|
| Department |
Division of Infection and Pathway Medicine
|
| Street address |
49 Little France Crescent
|
| City |
Edinburgh |
| ZIP/Postal code |
EH16 4SB |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL15207 |
| Series (1) |
| GSE41960 |
Expression data from primary human dermal fibroblasts with STAT2 deficiency and control fibroblasts treated with interferon |
|
