|
| Status |
Public on Oct 27, 2006 |
| Title |
Tuberculosis Pool_vs_TB_1043 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
PBMC
|
| Organism |
Homo sapiens |
| Characteristics |
PBMC_Pool
|
| Treatment protocol |
no
|
| Growth protocol |
no
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PBMC were immediately mixed with TRIzol® reagent (Invitrogen, Carlsbad, CA) and frozen at −80 °C until RNA was extracted according to manufacturer’s instructions. RNA content, purity, and integrity were determined using Agilent 2100 Bioanalyzer (Agilent Technologies, Forster City, CA).
|
| Label |
Cy3
|
| Label protocol |
Total RNA was labeled with the Fluorescent Linear Amplification Kit (Agilent Technologies) following manufacturer’s instructions.
|
| |
|
| Channel 2 |
| Source name |
PBMC
|
| Organism |
Homo sapiens |
| Characteristics |
PBMC_TB_1043
|
| Treatment protocol |
no
|
| Growth protocol |
no
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PBMC were immediately mixed with TRIzol® reagent (Invitrogen, Carlsbad, CA) and frozen at −80 °C until RNA was extracted according to manufacturer’s instructions. RNA content, purity, and integrity were determined using Agilent 2100 Bioanalyzer (Agilent Technologies, Forster City, CA).
|
| Label |
Cy5
|
| Label protocol |
Total RNA was labeled with the Fluorescent Linear Amplification Kit (Agilent Technologies) following manufacturer’s instructions.
|
| |
|
| |
| Hybridization protocol |
After photometric quantification of cRNA and determination of labeling efficiency, 2 µg of samples were fragmented and hybridized for 20 h on custom designed oligonucleotide microarrays (AMADID 011412; Agilent Technologies) containing 8,033 human genes.
|
| Scan protocol |
Microarrays were processed according to manufacturer’s instructions and scanned at 5 µm resolution using an Agilent scanner. Image analysis was performed with feature extraction software (Feature Extractor Version 6.1.1., Agilent Technologies) using default settings and global background normalization.
|
| Description |
no
|
| Data processing |
Image analysis was performed with feature extraction software (Feature Extractor Version 6.1.1., Agilent Technologies) using default settings and global background normalization.
|
| |
|
| Submission date |
Oct 23, 2006 |
| Last update date |
Oct 26, 2006 |
| Contact name |
Marc Jacobsen |
| E-mail(s) |
jacobsen@mpiib-berlin.mpg.de
|
| Organization name |
Max-Planck-Institute for Infection Biology
|
| Department |
Immunology
|
| Street address |
Chariteplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL4475 |
| Series (1) |
| GSE6112 |
Tubercolosis and healthy infected patients PBMC_TB_vs_Pool_LTBI |
|
