|
| Status |
Public on Jun 27, 2014 |
| Title |
Convalescent Patient 54 |
| Sample type |
RNA |
| |
|
| Source name |
Whole Blood of Dengue infected patient at convalescent time point
|
| Organism |
Homo sapiens |
| Characteristics |
subject id: 54
infection: DENV
status: convalescent
tissue: whole blood
|
| Treatment protocol |
Blood was collected on CPT tubes (Vacutainer® with Sodium Citrate; BD). Whole blood specimens were preserved on RNALater buffer (Ambion) and stored in -80oC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the RiboPure-Blood kit (Ambion) and alpha and beta globin mRNA was depleted by GLOBINclear™ Kit (Ambion) according to the manufacturer’s protocol. All RNA samples were checked for purity using a ND-1000 spectrophotometer (NanoDrop Technologies) and for integrity by electrophoresis on a 2100 BioAnalyzer (Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
Total RNA sample quality was evaluated by spectrophotometer to determine quantity, protein contamination and organic solvent contamination, and an Agilent 2100 Bioanalyzer was used to check for RNA degradation. Two-round in vitro transcription amplification and labeling was performed starting with 50 ng intact, total RNA per sample, following the Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Two-round in vitro transcription amplification and labeling was performed starting with 50 ng intact, total RNA per sample, following the Affymetrix protocol. Samples were hybridized on Human U133 Plus 2.0 Arrays (using GeneTitan platform).
|
| Scan protocol |
Scanning was performed on a 7th generation GeneChip Scanner 3000, and the Affymetrix GCOS software was used to perform image analysis and generate raw intensity data.
|
| Description |
convalescent_54
|
| Data processing |
RMA normalization was performed using Expression Console software.
|
| |
|
| Submission date |
Oct 28, 2013 |
| Last update date |
Jun 27, 2014 |
| Contact name |
Helder I. Nakaya |
| E-mail(s) |
hnakaya@usp.br
|
| Phone |
+551126481130
|
| Organization name |
Universidade de São Paulo
|
| Lab |
csbiology.com
|
| Street address |
AVENIDA PROFESSOR LINEU PRESTES, 580, Block 17
|
| City |
SÃO PAULO |
| State/province |
SÃO PAULO |
| ZIP/Postal code |
05508000 |
| Country |
Brazil |
| |
|
| Platform ID |
GPL13158 |
| Series (1) |
| GSE51808 |
Systems biological analysis of immunity to dengue |
|
