|
| Status |
Public on Sep 19, 2019 |
| Title |
CE-3: Cardioembolic_pool3 |
| Sample type |
RNA |
| |
|
| Source name |
Blood buffy coat, CE
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: ischemic stroke
tissue: blood
# pooled samples: 4
average age: 79.8
|
| Treatment protocol |
Blood samples were collected into EDTA tubes within 4.5 hours from stroke onset. Buffy coat was collected after centrifugation at 1500 g, 4°C for 15 minutes and mixed with RNAlater solution (Ambion).
|
| Growth protocol |
Blood buffy coat samples were frozen at -80°C until RNA isolation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with the RiboPure-Blood kit (Ambion) and depleted with the GLOBINclear kit (Ambion)
|
| Label |
biotin
|
| Label protocol |
Samples were amplified with Ovation Pico WTA kit (Nugen) and fragmented and labeled with Encore Biotin Module (Nugen).
|
| |
|
| Hybridization protocol |
cDNA was hybridized in GeneChip Human Exon 1.0 ST arrays Affymetrix microarrays for 16 hours with rotation
|
| Scan protocol |
Microarrays were scanned in Affymetrix Genechip Scanner 3000
|
| Description |
Gene expression data from blood samples 4.5 hours after ischemic stroke
|
| Data processing |
The images were processed with the Affymetrix GeneChip Command Console software (Affymetrix) for CEL file generation. To check the array quality, Affymetrix Expression Console was used. Samples that demonstrated good quality results (pm mean, bgrd mean, pos vs neg auc, ...) were subjected to subsequent analysis. Raw expression values obtained directly from .CEL files were preprocessed using the RMA method. Statistical language R and Bioconductor associated packages were used to process data.
|
| |
|
| Submission date |
Dec 18, 2018 |
| Last update date |
Sep 19, 2019 |
| Contact name |
Elena Palà |
| E-mail(s) |
[email protected]
|
| Organization name |
Institut de Recerca Hospital Vall d’Hebron
|
| Lab |
Neurovascular Research Laboratory
|
| Street address |
Pg Vall d’Hebron 119-129
|
| City |
Barcelona |
| ZIP/Postal code |
08035 |
| Country |
Spain |
| |
|
| Platform ID |
GPL5175 |
| Series (1) |
| GSE124026 |
Expression data from stroke patients blood samples |
|
