|
| Status |
Public on Sep 07, 2015 |
| Title |
WT control, 4 |
| Sample type |
RNA |
| |
|
| Source name |
Sorted Lin-cKit+ cells from bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
genotype/variation: wildtype
background strain: mixed (R1 embryonic stem cell-derived, Agouti, C57Bl/6)
|
| Treatment protocol |
no treatment
|
| Growth protocol |
uncultured primary cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total mRNA was extracted using Qiagen's RNAesy Micro kit according to the manufacturer's instructions; After checking the quality of RNA with an Agilent 2100 Bioanalyzer, total RNA was amplified utilizing Single Primer Isothermal Amplification (SPIA®Nugen Ovation pico WTA) system according to the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared using the GeneChip® WT terminal labeling kit (Affymetrix) according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on GeneChip® Mouse Gene 1.0 ST microarray (Affymetrix). GeneChips were washed and stained in an Affymetrix Fluidics Station
|
| Scan protocol |
GeneChip® Scanner 3000 7G system (Affymetrix) according to standard protocols.
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using RMA from the oligo (oligo_1.30.0) Bioconductor package. Values are log2-transformed expression values after RMA-normalization.
|
| |
|
| Submission date |
Feb 05, 2015 |
| Last update date |
Sep 07, 2015 |
| Contact name |
Britta Will |
| E-mail(s) |
[email protected]
|
| Organization name |
Albert Einstein College of Medicine
|
| Department |
Cell Biology
|
| Street address |
1300 Morris Park Avenue
|
| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (2) |
| GSE65668 |
Gene expression analysis of leukemia-initiating cells of compound URE-/+::Msh2-/- mice |
| GSE65671 |
Gene expression analysis of leukemia-initiating cells of URE-/+::Msh2-/- mice |
|
