|
| Status |
Public on Nov 12, 2024 |
| Title |
Control 1 |
| Sample type |
RNA |
| |
|
| Source name |
Transplanted BC and LC mixture
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Transplanted BC and LC mixture
|
| Treatment protocol |
For the transplantation of mammary gland cells, we prepared 10,000 BC cells only as multipotent condition and mixture of 8000 LC cells and 2000 BC cells as unipotent control condition.
|
| Growth protocol |
Mice were maintained in a certified animal house according to European guidelines
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were sorted after 3 days of transplantation and 50 cells were used for RNA extraction. RNA extraction was performed using Absolutely RNA Nanoprep kit (Stratagene) according to the manufacturer’s recommendations.
|
| Label |
Biotin
|
| Label protocol |
cDNA was labeled using GeneChip Mapping 250K Nsp Assay Kit (Affymetrix; catalog # 900766), according to manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Affymetrix MG-430 PM array strips were hybridized with 8 mg of labeled cDNA, washed, stained and scanned according to the protocol described in GeneAtlas 3’IVT express kit User Manual.
|
| Scan protocol |
Arrays were scanned with GeneAtlasImaging station scanner (Affymetrix, Santa Clara, CA)
|
| Data processing |
All the results were normalized using the RMA normalization algorithm using R-bioconductor affy package with standard parameters. Cross experiment normalization was further performed to eliminate the batch effect using non-parametric empirical Bayes frameworks for adjusting data implemented in ComBat function of the Surrogate Variable Analysis package (SVA) in R-bioconductor
|
| |
|
| Submission date |
Sep 15, 2023 |
| Last update date |
Nov 12, 2024 |
| Contact name |
Yura Song |
| E-mail(s) |
[email protected]
|
| Organization name |
Université Libre de Bruxelles
|
| Lab |
Laboratory of Stem Cells and Cancer
|
| Street address |
808, route de Lennik
|
| City |
Bruxelles |
| ZIP/Postal code |
1070 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL11180 |
| Series (2) |
| GSE243337 |
Collagen signaling and matrix stiffness regulate multipotencyin glandular epithelial stem cells in mice [microarray] |
| GSE243338 |
Collagen signaling and matrix stiffness regulate multipotency in glandular epithelial stem cells in mice |
|
