|
| Status |
Public on Aug 01, 2012 |
| Title |
SMZL_7q32del_5 |
| Sample type |
RNA |
| |
|
| Source name |
Splenic Marginal Zone Lymphoma patient sample
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: splenic marginal zone lymphoma
7q32 deletion: yes
|
| Growth protocol |
Mononuclear cells were isolated from peripheral blood of Splenic Marginal Zone Lymphoma patients
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthezising the cRNA using the IVT labeling kit (Affymetrix). The synthezised cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
|
| Description |
Gene expression data from SMZL patient with 7q32 deletion
|
| Data processing |
Data were normalized with Bioconductor software using RMA algorithm.
|
| |
|
| Submission date |
Jan 12, 2012 |
| Last update date |
Aug 01, 2012 |
| Contact name |
Vicente Jose Fresquet |
| E-mail(s) |
vfresquet@unav.es
|
| Phone |
34-948-194700
|
| Fax |
34-948-194714
|
| Organization name |
Center for Applied Medical Research (Cima)
|
| Department |
Division of Oncology
|
| Lab |
Molecular Oncology
|
| Street address |
Av Pio XII 55
|
| City |
Pamplona |
| State/province |
Navarra |
| ZIP/Postal code |
31008 |
| Country |
Spain |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE35082 |
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA (expression) |
| GSE35383 |
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA |
|
