|
| Status |
Public on Aug 03, 2013 |
| Title |
HCC PBMC Sample 7 |
| Sample type |
RNA |
| |
|
| Source name |
PBMC sample from hepatocellular carcinoma patient
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: peripheral blood mononuclear cell (PBMC)
disease status: hepatocellular carcinoma (HCC)
|
| Treatment protocol |
Within 6 hours of collection, blood was processed by density gradient centrifugation using Ficoll-Paque PLUS (GE Healthcare, Sweden). Residual red blood cells were lysed and washed with phosphate-buffered saline (PBS). The isolated peripheral blood mononuclear cells (PBMCs) were stored at -80 oC.
|
| Growth protocol |
Patients with primary pancreatic, gastric or HCC were recruited at diagnosis. Informed consent was obtained from all subjects before blood samples were collected. A total of 10 ml of blood was collected into BD Vacutainer® Plus K2EDTA tubes (Becton-Dickinson, USA).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from PBMC and WBC using TRIzol reagent (Invitrogen, USA) according to the manufacturer's protocol.
|
| Label |
biotin
|
| Label protocol |
Five micrograms of total RNA were reverse-transcribed and labeled with biotin.
|
| |
|
| Hybridization protocol |
The final cRNA obtained was hybridized to the GeneChip Human Genome U133 Plus 2.0 Array (Affymetrix, USA).
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Description |
Gene expression data from PBMC sample of hepatocellular carcinoma patient.
|
| Data processing |
The data was analysed using Partek Genomics Suite version 6.6. CEL files were imported into Partek with GCRMA background correction, quantile normalisation and log2 transformation.
|
| |
|
| Submission date |
Aug 02, 2013 |
| Last update date |
Aug 03, 2013 |
| Contact name |
Kam Hui |
| E-mail(s) |
[email protected]
|
| Organization name |
National Cancer Centre Singapore
|
| Street address |
11 Hospital Drive
|
| City |
Singapore |
| ZIP/Postal code |
169610 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE49515 |
Expression profiling of PBMC from patients with hepatocellular carcinoma |
|
