|
| Status |
Public on Jan 24, 2020 |
| Title |
PET32_B |
| Sample type |
RNA |
| |
|
| Source name |
cells from peritoneal dialysis effluent, previous peritonitis, without AlaGln
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: cells isolated from peritoneal effluent of peritoneal dialysis patient
treatment: treatment B - without AlaGln
previous_peritonitis: yes
patient: 20
|
| Treatment protocol |
No in-vitro treatment was performed. The differential treatment of the isolated cells resulted from treatment with different peritoneal dialysis solutions in the course of the clinical study.
|
| Growth protocol |
No cell culturing was performed. The used cell material was freshly isolated from peritoneal dialysis effluents.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from peritoneal cells (4 h PET) using RNeasy columns (Qiagen), using 350 µl of RLT buffer (Qiagen) and following the manufacturer's instructions without modifications.
|
| Label |
biotin
|
| Label protocol |
100ng of total RNA were amplified and labeled using the Ambion Whole Transcript Expression Kit (Catalog Number 4425209, Ambion, Austin, TX) and Affymetix GeneChip Whole Transcript Terminal Labeling Kit (Catalog Number 900671, Affymetrix, Santa Clara, CA).
|
| |
|
| Hybridization protocol |
Affymetrix GeneChip® Human Gene 1.0 ST arrays were washed, stained and scanned according to the protocol described in GeneChip® WT Terminal Labeling and Hybridization User Manual (Fluidics Protocol FS450_0007).
|
| Scan protocol |
Scanning was done on an Affymetrix GeneChip Scanner 3000 7G, software AGCC 3.1.1.
|
| Description |
Gene expression data from cells isolated from peritoneal effluent following a single 4 h peritoneal dialysis dwell without added AlaGln in a patient who had previously suffered from peritonitis.
|
| Data processing |
Samples were normalized via the Comprehensive R based Microarray Analysis web frontend CARMAweb (https://carmaweb.genome.tugraz.at/carma) using the Robust Multiarray Analysis (RMA) algorithm. The algorithm consists of: background correction (subtract the minimal signal intensity), normalization (quantile-quantile normalization) and summarizing the probe set values.
|
| |
|
| Submission date |
Apr 24, 2014 |
| Last update date |
Jan 24, 2020 |
| Contact name |
Klaus Kratochwill |
| Organization name |
Medical University of Vienna
|
| Street address |
Lazarettgasse 14
|
| City |
Wien |
| ZIP/Postal code |
1090 |
| Country |
Austria |
| |
|
| Platform ID |
GPL11209 |
| Series (1) |
| GSE57070 |
Alanyl-glutamine in peritoneal dialysis fluids - a randomized controlled phase I/II trial |
|
