|
| Status |
Public on Oct 01, 2019 |
| Title |
C18 Pre hydrocortisone |
| Sample type |
RNA |
| |
|
| Source name |
C18 Pre hydrocortisone
|
| Organism |
Homo sapiens |
| Characteristics |
individual: Pid C18
timepoint: Pre
treatment: hydrocortisone
acth: Responder
survival (28 days): survived
age: 54
gender: male
pre-treatment ifng il10 ratio: low
disease: septic shock
cell type: blood leukocytes
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Blood was drawn on (pre) and 24 h after admission (post) and prepared with PAXgene reagent (PreAnalytix®, Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
Biotinylated probes were prepared from total RNA, using the TargetAmp™-Nano Labeling Kit for Illumina® Expression BeadChip®.
|
| |
|
| Hybridization protocol |
1.5 µg cRNA of each sample was hybridized on Human-WG6-V3 BeadChips. Hybridization was performed according to the Gene Expression on Sentrix® Arrays Direct Hybridization System Manual (Illumina Inc.). After 16 h hybridization time at a temperature of 58° C for a volume of 30 µl, label incorporation was performed by staining of hybridized arrays with 1µg/µl Streptavidin-Cy3 (FluoroLink® Cy3, GE Biosciences). Arrays were washed, dried and scanned immediately.
|
| Scan protocol |
Arrays were scanned on an Illumina BeadArray Reader (MIAME compliant file). BeadChips were scanned by Gene Expression Module v3.2 according to the protocol of the manufacturer (Revision A). Arrays were readout with the detection system iScan from Illumina.
|
| Description |
C18 Pre hydrocortisone
1705168041_E
|
| Data processing |
Raw data was pre-processed using GenomeStudio (v 1.9.0). Microarray normalization and statistical analysis were performed using R/Bioconductor (www.r-project.org). Probes with a detection significance P ≤ 0.05 were selected for further analysis. The data was log2 transformed followed by quantile normalization using the lumi package. Probe annotations were processed using lumiHumanIDMapping and lumiHumanAll.db to get HGNC symbols via Illumina nuIDs.
|
| |
|
| Submission date |
Nov 14, 2017 |
| Last update date |
Oct 01, 2019 |
| Contact name |
Amol Kolte |
| Organization name |
Center for Sepsis Control and Care, University Clinic, Jena
|
| Street address |
Am Klinikum 1
|
| City |
Jena |
| ZIP/Postal code |
07747 |
| Country |
Germany |
| |
|
| Platform ID |
GPL10295 |
| Series (1) |
| GSE106878 |
IFNγ/IL10 ratio stratifies corticosteroids therapy for septic shock |
|
