|
| Status |
Public on Jul 05, 2019 |
| Title |
sHCC-Pt32 |
| Sample type |
genomic |
| |
|
| Source name |
HCC tissue from cirrotic liver
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: HCC tissue from cirrotic liver
pathologic classification: sHCC
pathologic subclassification: eHCC
tissue preparation: FFPE
|
| Treatment protocol |
Previous treatment with the Infinium FFPE restoration kit (Illumina) was performed for FFPE samples.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from seven to ten macrodissected FFPE sections (5 μm) using the automated procedure QIAcube and QIAGEN spin columns (Qiagen, Hilden, Germany). For fresh-frozen samples, tissues were processed for gDNA extraction using the Invitrogen ChargeSwitch genomic DNA Mini Tissue.
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
Standard Illumina protocol
|
| |
|
| Hybridization protocol |
Standard Illumina protocol
|
| Scan protocol |
Standard Illumina protocol
|
| Description |
Sample name: NY5213
Genomic DNA extracted from dysplastic nodules or small hepatocellular carcinomas was genotyped using HumanOmniExpress-24 v1.1 BeadChip (Illumina).
|
| Data processing |
Genotype, Log R ratio (LRR, reflecting total copy number) and B-allele frequency (BAF) obtained from GenomeStudio were used for CNV detection.
|
| |
|
| Submission date |
May 07, 2017 |
| Last update date |
Jul 05, 2019 |
| Contact name |
Sara Torrecilla |
| Organization name |
IDIBAPS
|
| Lab |
Liver Cancer Translational Research Laboratory
|
| Street address |
Rossello Street, 149
|
| City |
Barcelona |
| State/province |
Catalonia |
| ZIP/Postal code |
08036 |
| Country |
Spain |
| |
|
| Platform ID |
GPL22678 |
| Series (2) |
| GSE98619 |
Trunk events present minimal intra- and inter-tumoral heterogeneity in hepatocellular carcinoma [early CNV] |
| GSE98620 |
Trunk events present minimal intra- and inter-tumoral heterogeneity in hepatocellular carcinoma |
|
