|
| Status |
Public on Mar 15, 2010 |
| Title |
HSC sample 3 |
| Sample type |
RNA |
| |
|
| Source name |
Lin(CD3e; CD4, CD8a, CD19, CD45R, CD127; Gr1, TER119)- CD117+ Sca1+
|
| Organism |
Mus musculus |
| Characteristics |
genetic background: C57Bl6
cell type: HSC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction following manufacturer's protocol.
|
| Label |
Biotin
|
| Label protocol |
10 to 50 nanograms of total RNA was amplified and processed to produce biotinylated cDNA targets using two round of in vitro RNA synthesis
|
| |
|
| Hybridization protocol |
3.75 micrograms of biotinylated material was hybridized according to the standard Affymetrix protocol.
|
| Scan protocol |
Standard Affymetrix protocol
|
| Description |
purified Lineage- CD117+ Sca1+ cells form 8 week old female mice
|
| Data processing |
RMA background correction and quantile normalization done with the GenePattern ExpressionFileCreator module (http://www.broad.mit.edu/cancer/software/genepattern/) which uses the Bioconductor implementation of RMA (http://www.bioconductor.org/). This function computes the Robust Multichip Average expression measure described in Irizarry et al Biostatistics (2003).
|
| |
|
| Submission date |
Feb 17, 2010 |
| Last update date |
Feb 17, 2010 |
| Contact name |
Amit Sinha |
| E-mail(s) |
[email protected]
|
| Phone |
617-582-7579
|
| Organization name |
Dana-Farber Cancer Institute
|
| Department |
Pediatric Oncology
|
| Lab |
Armstrong Lab
|
| Street address |
44 Binney St
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02135 |
| Country |
USA |
| |
|
| Platform ID |
GPL8321 |
| Series (1) |
| GSE20377 |
Activation or maintenance of a leukemia stem cell self-renewal pathway in downstream myeloid cells |
|
