|
| Status |
Public on Dec 28, 2022 |
| Title |
23-AU: Antrum_undifferentiated_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
undifferentiated antrum mucosoids
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: stomach
gender: female
age: 55
|
| Treatment protocol |
Differentiation was induced by removing Wnt and R-spondin from the cell culture medium for seven days
|
| Growth protocol |
Human primary gastric epithelial cells were isolated and cultivated as described in Boccellato et al., 2018, Gut
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated folllowing the Trizol extraction method protocol
|
| Label |
Cy3-CTP
|
| Label protocol |
RNA was labeled with the Agilent single-color Low Input Quick Amp Labeling Kit according to the manufacturer's protocol
|
| |
|
| Hybridization protocol |
Hybridization of 0.75 µg was performed according to the supplier's protocol (Agilent Technologies)
|
| Scan protocol |
Scanning was performed with 3 µm resolution using the G2565CA Agilent high-resolution laser microarray scanner
|
| Description |
non transformed human primary cells
|
| Data processing |
Microarray images were processed using default settings of the Agilent Feature Extraction software (G2567AA, Version A.10.10.1) and the GE1_1105_Oct12 protocol. Extracted single-color raw data txt files were further analyzed in the R/Bioconductor environment and the package limma. Background correction was perfomred using normexp with offset 15 and the data were normalized by quantile normalization.
|
| |
|
| Submission date |
Dec 09, 2019 |
| Last update date |
Dec 29, 2022 |
| Contact name |
Thomas F Meyer |
| E-mail(s) |
tfm@mpiib-berlin.mpg.de
|
| Phone |
03028 460 404
|
| Organization name |
Max Planck Institute for Infection Biology
|
| Department |
Molecular Biology
|
| Street address |
Chariteplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23572 |
| Series (2) |
| GSE141657 |
Gene expression changes in undifferentiated and differentiated human primary epithelial cells of antrum, corpus, and fundus |
| GSE141660 |
Changes in undifferentiated and differentiated human primary epithelial cells of antrum, corpus, and fundus |
|
