|
| Status |
Public on Jan 01, 2015 |
| Title |
S5lo10 |
| Sample type |
RNA |
| |
|
| Source name |
skin fibroblasts, SRS patient
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: Silver-Russell syndrome
cell type: skin fibroblasts
methylation: SRShypo
|
| Growth protocol |
Skin biopsies of both arms were obtained from four SRS patients and three healthy volunteers. Fibroblast cultures were cultivated in RPMI (Invitrogen, Karlsruhe, Germany), supplemented with 10% fetal calf serum (FCS; Biochrom, Berlin, Germany), 100 units/ml penicillin/streptomycin (Biochrom), and incubated in a 37°C humidified atmosphere containing 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from clonal fibroblasts using the miRNeasy Mini Kit (Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
Affymetrix standard 3' labelling protocol, GeneChip IVT Express Kit (Part no. 901229)
|
| |
|
| Hybridization protocol |
Standard affymetrix GeneTitan hybridization protocol for GeneChip Human Genome U219 array plates
|
| Scan protocol |
Scanning was performed by GeneTitan Instrument. Affymetrix GeneChip Command Console 3.1 was used to control the process and to summarize probe cell intensity data.
|
| Data processing |
The files containing a single intensity value for each probe region delineated by a grid on each array image were imported into Partek Genomics Suite (version 6.6, Partek, St. Louis, MO) for probe set summarization and statistical analysis. Model based Robust Multichip Analysis was performed.
|
| |
|
| Submission date |
Sep 04, 2014 |
| Last update date |
Jan 01, 2015 |
| Contact name |
Doreen Heckmann |
| E-mail(s) |
[email protected]
|
| Organization name |
DKFZ
|
| Street address |
INF280
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platform ID |
GPL13667 |
| Series (1) |
| GSE61120 |
Decreased expression of cell proliferation-related genes in clonally derived skin fibroblasts from children with Silver-Russell syndrome is independent of the degree of 11p15 ICR1 hypomethylation |
|
