|
| Status |
Public on Sep 15, 2020 |
| Title |
Macrophage_tg_1 |
| Sample type |
RNA |
| |
|
| Source name |
tumor bearing liver
|
| Organism |
Mus musculus |
| Characteristics |
tissue: tumor bearing liver
cell type: macrophage
genotype: YapS127A
|
| Growth protocol |
Macrophages were isolated by a collagenase digest, a gradient centrifugation and magnetic labeling. Magnetically enriched macrophages were further FACS purified using CD11b, F4/80, CD146 and live/dead cell discrimination. RNA was immediately extracted once the cell sorting procedure was complete.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PicoPuro extraction kit (Life technologies) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
|
| Scan protocol |
Affymetrix GeneArray Scanner3000
|
| Description |
Retinoid- CD146- CD11b+ F4/80+
|
| Data processing |
The data were analyzed with a commercial software called JMP Genomics, version 7, from SAS. Gene expression profiling was performed using arrays of mouse Mogene-2_0-type from Affymetrix. A Custom CDF Version 21 with Entrez based gene definitions was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization, RMA background correction and Medianpolish Probeset Summary
|
| |
|
| Submission date |
Mar 08, 2019 |
| Last update date |
Sep 16, 2020 |
| Contact name |
Carsten Sticht |
| Organization name |
University Heidelberg
|
| Department |
ZMF
|
| Street address |
Theodor-Kutzer-Ufer
|
| City |
Mannheim |
| ZIP/Postal code |
68169 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23092 |
| Series (2) |
| GSE128045 |
Liver macrophages in YapS127A and wildtype livers |
| GSE128047 |
An endothelial subtype-specific communication network orchestrates capillarization in liver tumorigenesis via the Hgf/c-Met pathway |
|
