|
| Status |
Public on Nov 27, 2024 |
| Title |
DSS anti-PD1 ECP - 5 |
| Sample type |
RNA |
| |
|
| Source name |
Colitis tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Wildtype
disease state: ICI-mediated colitis
treatment: ECP-treated donor cells
tissue: Complete colon tissue
|
| Treatment protocol |
C57BL/6 WT mice were treated with 3% DSS in drinking water and anti-PD1 i.p. to induce colitis (samples P). Some mice were additionally transplanted with ECP treated donor cells (samples E).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tissue samples were blended in RLT buffer and total RNA was isolated using the miRNeasy Mini Kit (QIAGEN) according to the manufacturer's instructions.
|
| Label |
Biotin
|
| Label protocol |
We used the Applied Biosystems GeneChipTM WT PLUS Reagent Kit (catlog n.: 902280) for cDNA synthesis, amplification, cRNA synthesis, second-cycle cDNA synthesis, as well as fragmentation and labeling with Biotin according to manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Labeled fragments were hybridized to Applied Biosystems Clariom S Mouse Arrays for 16h at 45°C with 60 rpm in an Affymetrix Hybridization Oven 645.
|
| Scan protocol |
After washing and staining, the arrays were scanned with the Affymetrix GeneChip Scanner 3000 7G. CEL-files were produced from the raw data with Affymetrix GeneChip Command Console Software.
|
| Description |
E5
|
| Data processing |
CEL files were analysed using the oligo R package. RMA method, log2 transformed were used to normalized the probe intensities.
|
| |
|
| Submission date |
Jul 09, 2022 |
| Last update date |
Nov 27, 2024 |
| Contact name |
Geoffroy Andrieux |
| Organization name |
University clinics Freiburg
|
| Street address |
Breisacherstr 153
|
| City |
Freiburg |
| ZIP/Postal code |
79110 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23038 |
| Series (2) |
| GSE207823 |
ECP as a treatment for immune checkpoint inhibitor-induced colitis [array] |
| GSE207884 |
Immune checkpoint inhibitor-induced colitis |
|
