|
| Status |
Public on Jul 08, 2010 |
| Title |
Melanoma cell line Ma-Mel-08a |
| Sample type |
RNA |
| |
|
| Source name |
Melanoma cell line Ma-Mel-08a, derived from metastatic tumor
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: melanoma cell line derived from metastatic tumor
cell line: Ma-Mel-08a
genotype/variation: homozygous deletion at the CDKN2A locus
|
| Growth protocol |
Cell lines were grown according to standard conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cells using RNeasy Mini Kit (Qiagen). Concentrations of RNA were measured by UV spectrophotometry and the integrity of total RNA isolated from cell lines was determined on the Bioanalyzer 2100 System
|
| Label |
biotin
|
| Label protocol |
As per manufacturer (Affymetrix)
|
| |
|
| Hybridization protocol |
RNA was converted into double stranded cDNA and cRNA and hybridized to each array according to the manufacturer's instructions.
|
| Scan protocol |
The Arrays were washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000 7G.
|
| Description |
Cell line with homozygous deletion at the CDKN2A locus
|
| Data processing |
Image analysis was performed with the Affymetrix GeneChip Operating Software (GCOS version 1.4, MAS5) and for pair-wise comparisons of expression profiles. SAM (significance analysis of micro-arrays) was used for statistically significant changes in expression. Marker analysis was performed using GeneCluster 2.0.
|
| |
|
| Submission date |
Jul 07, 2010 |
| Last update date |
Jul 12, 2010 |
| Contact name |
Andreas Gast |
| E-mail(s) |
a.gast@dkfz.de
|
| Phone |
+496221421804
|
| Fax |
+496221421810
|
| Organization name |
Gernman Cancer Research Center
|
| Department |
Division of Molecular Genetic Epidemiology
|
| Street address |
INF 580
|
| City |
Heidelberg |
| State/province |
BW |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platform ID |
GPL571 |
| Series (1) |
| GSE22787 |
Affymetrix HG-U133A 2.0 Expression data |
|
