|
| Status |
Public on Dec 11, 2010 |
| Title |
KM-H2 |
| Sample type |
genomic |
| |
|
| Source name |
Hodgkin lymphoma cell line KM-H2
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Pleural effusion cells
cell line: KM-H2
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Qiagen Allprep extraction columns
|
| Label |
biotin
|
| Label protocol |
standard Affymetrix protocol
|
| |
|
| Hybridization protocol |
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
|
| Scan protocol |
GeneChips were scanned using Affymetrix GeneChip Scanner
|
| Description |
Genome-wide SNP/CN data of Hodgkin lymphoma cell line KM-H2
|
| Data processing |
The Affymetrix SNP 6.0 data were processed using the R-based aroma.affymetrix package (Bengsston et al, Bioinformatics 2009). Total copy number was estimated according to the CRMA procedure, calibrating for allelic cross talk, nucleotide-position probe sequence effects, robust probe summarization and correction for fragment length effects.
|
| |
|
| Submission date |
Dec 10, 2010 |
| Last update date |
Dec 11, 2010 |
| Contact name |
Christian Steidl |
| E-mail(s) |
csteidl@bccancer.bc.ca
|
| Phone |
1-604-675-8046
|
| Organization name |
BC Cancer Agency
|
| Department |
Pathology
|
| Lab |
Steidl lab
|
| Street address |
675 West 10th Avenue
|
| City |
Vancouver |
| State/province |
BC |
| ZIP/Postal code |
V5Z 1L3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL6801 |
| Series (2) |
| GSE25989 |
Copy number analysis of Hodgkin lymphoma cell lines KM-H2 and L-428 |
| GSE25990 |
Hodgkin lymphoma |
|
