|
| Status |
Public on Oct 27, 2018 |
| Title |
CD90+ 18_(MTA-1_0) |
| Sample type |
RNA |
| |
|
| Source name |
sorted colon fibroblasts Epcam-CD45-CD31-GP38+
|
| Organism |
Mus musculus |
| Characteristics |
tissue: colon
sorted population: CD90+
strain: C57BL/6J
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA from the colons was extracted with Agencourt RNAdvance Cell v2 kit (Beckman Coulter, Beverly, Massachusetts, USA) according to manufacturers’ protocol including DNA digestion step. RNA integrity and concentration were quantified with BioAnalyzer (Agilent Technologies).
|
| Label |
Cy3
|
| Label protocol |
2 ng RNA was amplified and labeled using 3’ IVT pico kit Affymetrix RNA amplification kit (Nugene) according to manufacturer’s protocol
|
| |
|
| Hybridization protocol |
The GeneChip Hybridization, Wash and Stain Kit (#900720) is used for the for the hybridizations, washing, and staining of the chips. Affymetrix Clariom® D array HT (Affymetrix) according to the standard protocols of the Dutch Genomics Service and Support Provider (MAD, Science Park, University of Amsterdam, Netherlands)
|
| Scan protocol |
The GeneChip Hybridization, Wash and Stain Kit (#900720) is used for scanning of the chips.
|
| Description |
C57BL/6J mice were used for colon isolation and flow-sorting experiments
|
| Data processing |
The Affymetrix Command Console (v1.1) and Expression Console software (v1.1) are used to measure the performance of the washing, staining and scanning of the chips, and provide the data stored in DTT format and Cell Intensity File (*.cel) for each GeneChip processed.
Robust Multichip Average (RMA) normalization.
|
| |
|
| Submission date |
Oct 17, 2017 |
| Last update date |
Oct 27, 2018 |
| Contact name |
Olga N Karpus |
| E-mail(s) |
[email protected]
|
| Organization name |
Academic Medical Center
|
| Department |
Tytgat Institute for Liver and Intestinal research
|
| Street address |
Meibergdreef 69-71
|
| City |
Amsterdam |
| ZIP/Postal code |
1105 BK |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL20775 |
| Series (1) |
| GSE105102 |
Gene expression data of murine CD90- and CD90+ fibroblasts in the colon. |
|
