Giovannini-Chami 2012¶
Basic info¶
- GEO: GSE19187
- reference: [Giovannini-Chami12]
- platform: Affymetrix Human Gene 1.0 ST Array
- tissue: nasal epithelial brushings
- tissue environment: ex-vivo
Samples¶
| asthma | AR | controls | total |
|---|---|---|---|
| 14 | 0 | 12 | 26 |
more specifically
| Healthy | Rhinitis | Rhinitis with controlled asthma | Uncontrolled asthma |
|---|---|---|---|
| 11 | 14 | 7 | 6 |
so basically I removed the 14 Rhinitis and combined the two types of asthma.
The following is a summary of the covariate information extracted from downloaded GSE files.
Tue Aug 09 08:37:41 AM 2016
total files: 1
file: 1/1
file name: GSE19187_series_matrix.txt.gz
status: Public on Jan 05 2012
data processing: The data were analyzed with Expression Console using Affymetrix default analysis settings and Gene Level-RMA sketch as normalization method.
type: RNA
probes 33297
samples 38
platform_id: GPL6244
covariates extracted from eset...
disease_state
tissue
gender
age
model: ~0+dx+age+sex
gene filter 22151/33297
There were 53 significant probes
No differential expression was detected between these two groups of patients.
Heatmaps¶
Outliers removed¶
Heatmaps of the top 50 genes. The genes are clustered based on normalized values of intensity. The quality control check is that the samples cluster according to phenotype.
