|
| Status |
Public on Jun 27, 2013 |
| Title |
Adult bone marrow HSCs/progenitors (Hmga2+/+), biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Adult bone marrow Lin-Sca1+cKit+ (Hmga2+/+)
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Bone marrow
genotype/variation: Hmga2+/+
age: 8-12 weeks
|
| Growth protocol |
Lin-Sca1+cKit+ cells from fresh tissues (E14.5 FL or adult bone marrow) were isolated by FACS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the RNeasy Mini Spin Columns (QIAGEN) according to the manufacturer's instructions
|
| Label |
biotin
|
| Label protocol |
An average of 50 ng total RNA was amplified using the Ovation Pico WTA System to yield an average of 9-10 ug cDNA (Ovation Pico WTA System User Guide, 2011, NuGen). Afterwards, sense transcript cDNA was generated using the WT-Ovation Exon Module Version 1.0 protocol (WT-Ovation Exon Module User Guide, 2009-2010, NuGen). Fragmented and labeled single-stranded cDNA target were prepared according to the Encore Biotin Module protocol from 5 ug of ST-cDNA (Encore Biotin Module, 2009-2012, NuGen).
|
| |
|
| Hybridization protocol |
Following fragmentation and labeling , 5 ug of cDNA were hybridized for 18 hr at 45C on GeneChip Mouse Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix Genechip Scanner 3000 7G System.
|
| Description |
Gene expression data from wild-type adult bone marrow HSCs/progenitors
|
| Data processing |
All arrays were RMA normalized using the Bioconductor package 'xps' in R including the metacore probesets grouped by exon (this data linked as a supplementary table to GSE41758 as GSE41758_Data_by_Exon_IDs.txt.gz).
|
| |
|
| Submission date |
Oct 22, 2012 |
| Last update date |
Jun 27, 2013 |
| Contact name |
Connie Eaves |
| E-mail(s) |
ceaves@bccrc.ca
|
| Phone |
604-675-8122
|
| Organization name |
BC Cancer Agency
|
| Department |
Terry Fox Laboratory
|
| Street address |
675 West 10th Avenue
|
| City |
Vancouver |
| State/province |
BC |
| ZIP/Postal code |
V5Z1L3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL10740 |
| Series (1) |
| GSE41758 |
The Lin28b-let-7-Hmga2 axis determines the higher self-renewal potential of fetal haematopoietic stem cells |
|
