|
| Status |
Public on Feb 15, 2014 |
| Title |
TB 5 |
| Sample type |
RNA |
| |
|
| Source name |
PBMC from TB
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: tuberculosis
tissue: PBMC
|
| Treatment protocol |
PBMC was isolated from peripheral whole blood using Ficoll-Plaque Plus (Amersham Biosciences, USA) according to the manufacturer’s protocol. In brief, one ratio of diluted blood (1:1 ratio in PBS) sample was layered on 2 ratio of Ficoll-Plaque Plus (Amersham Biosciences, USA), pelleted (400g, 30 minutes at 18-20°C) and the buffy coat was collected, washed twice with PBS. PBMC with viability higher than 90% was subjected to RNA extraction.
|
| Growth protocol |
Peripheral whole blood was collected in heparinized vacutainer tubes (Becton Dickinson) and subjected to PBMC isolation within 4 hours.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 250 ng total RNA .
|
| |
|
| Hybridization protocol |
Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 7G
|
| Description |
Gene expression data from PBMC
|
| Data processing |
The data value(log2) were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
|
| |
|
| Submission date |
Feb 13, 2014 |
| Last update date |
Nov 30, 2020 |
| Contact name |
Xinchun Chen |
| E-mail(s) |
[email protected]
|
| Organization name |
Shenzhen Third People's Hospital
|
| Street address |
No.29, Bulan Road
|
| City |
Shenzhen |
| ZIP/Postal code |
518112 |
| Country |
China |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE54992 |
Expression data from peripheral blood |
|
| Relations |
| Reanalyzed by |
GSE162329 |
