|
| Status |
Public on Jun 04, 2013 |
| Title |
Placebo_nonresponder_6hr_person24 |
| Sample type |
RNA |
| |
|
| Source name |
whole blood
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: Placebo
group: nonresponder
time: 6hr
subject: person24
Sex: Female
bmi: 26.21
medication status: 1
tissue: whole blood
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TempusTM Spin RNA Isolation Kit
|
| Label |
biotin
|
| Label protocol |
standard Illumina protocol
|
| |
|
| Hybridization protocol |
standard Illumina protocol
|
| Scan protocol |
standard Illumina protocol
|
| Description |
Placebo_nonresponder_6hr_person24
|
| Data processing |
Microarray expression analysis was performed in R, using beadarray (providing routines to handle Illumina BeadStudio data) , limma (for statistical routines) and vsn (for normalization) packages. Raw microarray scan files were exported using the Illumina Beadstudio program and loaded into R for downstream analysis. The data were transformed and normalized using the variance stabilizing normalization method. Of the 48804 probes present on the Human HT-12v3, probes were selected which fulfilled the criteria of Illumina probe detection p-value of <0.01 in the individuals leaving 16962 transcripts after normalization and filtering for analysis. Raw qPCR data from the Roche LightCycler 480 System was extracted and the crossing thresholds (CT) from the technical replicates were averaged across all samples. Transcripts were normalized to housekeeping gene TBP.
|
| |
|
| Submission date |
Jun 04, 2013 |
| Last update date |
Jun 04, 2013 |
| Contact name |
Divya Mehta |
| Organization name |
MPI
|
| Street address |
Kraepelinstrasse2
|
| City |
Munich |
| ZIP/Postal code |
80804 |
| Country |
Germany |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE45468 |
Gene Expression Profiles Predict Infliximab Treatment Response in Patients with Treatment-Resistant Depression |
|
