|
| Status |
Public on Oct 01, 2008 |
| Title |
PBMCs_untreated_biorep1 |
| Sample type |
RNA |
| |
|
| Source name |
PBMCs untreated donor1
|
| Organism |
Homo sapiens |
| Characteristics |
donor 1
medium control untreated
|
| Treatment protocol |
Human PBMCs were purified from buffy coats of healthy blood donors and stimulated for 6h with the recombinant SAgs SEB or SEI.
|
| Growth protocol |
Purified PBMCs were cultured in RPMI containing 10% FCS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol extraction of total RNA, subsequent purification of RNA with Qiagen RNeasy Micro Kit and precipitation of RNA with Sodium acetate and ethanol.
|
| Label |
biotin
|
| Label protocol |
Preparation of biotinylated cRNA followed the Affymetrix standard protocol starting from 2.5 µg total RNA (GeneChip Expression Analysis Technical Manual, 2004, Affymetrix)
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 µg of cRNA were hybridized for 16 hr at 45°C on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Description |
PBMCs_untreated_biorep1
|
| Data processing |
Raw data were generated with GCOS 1.4 (MAS algorithm) without scaling. Normalization was performed with GeneSpring GX 7.3.1 (Agilent) and included data transformation of signals below 10 to 10 as well as per chip and per gene median normalisation.
|
| |
|
| Submission date |
Apr 28, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Sandra Scharf |
| Organization name |
Ernst Moritz Arndt University Greifswald, Institute for Genetics and Functional Genomics
|
| Department |
Department of Functional Genomics
|
| Street address |
F.-L.-Jahn-Str. 15a
|
| City |
Greifswald |
| ZIP/Postal code |
17489 |
| Country |
Germany |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE11281 |
Expression data from human PBMCs treated for 6h with the staphylococcal superantigens SEB and SEI |
|
| Relations |
| Reanalyzed by |
GSE119087 |
