|
| Status |
Public on Nov 28, 2019 |
| Title |
D23 |
| Sample type |
genomic |
| |
|
| Source name |
Inguinal lymph node
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Large B-cell lymphopma with IRF4 rearrangement
gender: Female
tissue: FFPE
|
| Treatment protocol |
none
|
| Growth protocol |
none
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA from formalin-fixed paraffin-embedded (FFPE) tissue was extracted after dewaxing and proteinase K digestion applying standard phenol/chloroform purification procedures
|
| Label |
Biotin
|
| Label protocol |
Affymetrix OncoScan™ FFPE Assay kit
|
| |
|
| Hybridization protocol |
Samples were hybridized onto Affymetrix OncoScan FFPE Assay ki arrays and were washed and stained with GeneChip Fluidics Station 450 (Affymetrix)
|
| Scan protocol |
Affymetrix® GeneChip® Scanner 3000G to detect target bound to Oncoscan array after staining with Biotin.
|
| Description |
Hybridized to Affymetrix OncoScan FFPE Assay
|
| Data processing |
Nexus biodiscovery 9.0 edition Software
Gains and losses were evaluated with visual inspection by 2 different observers using Nexus Biodiscovery software (Biodiscovery, Hawthorne CA, USA). The CNAs with a minimum size of 100kb were considered real. Loss of heterozigosity regions where considered when size was >5Mb.
|
| |
|
| Submission date |
Mar 13, 2019 |
| Last update date |
Nov 29, 2019 |
| Contact name |
Joan Enric Ramiz-Zaldivar |
| E-mail(s) |
ramis@clinic.cat
|
| Phone |
+34 932275400
|
| Organization name |
IDIBAPS
|
| Department |
Molecular Pathology Laboratory
|
| Lab |
Centre Esther Koplowitz (CEK)
|
| Street address |
Rosselló, 153
|
| City |
Barcelona |
| ZIP/Postal code |
08036 |
| Country |
Spain |
| |
|
| Platform ID |
GPL21558 |
| Series (2) |
| GSE128215 |
Large B-Cell Lymphomas in Pediatric and Young Adults Display Clinically Relevant Molecular Features Distinguishable from Adult Counterparts [oncoscan] |
| GSE128294 |
Large B-Cell Lymphomas in Pediatric and Young Adults Display Clinically Relevant Molecular Features Distinguishable from Adult Counterparts |
|
