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Status |
Public on Jun 27, 2013 |
Title |
Fetal liver HSCs/progenitors (Hmga2-/-), biological replicate 2 |
Sample type |
RNA |
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Source name |
E14.5 fetal liver Lin-Sca1+cKit+ (Hmga2-/-)
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Organism |
Mus musculus |
Characteristics |
tissue: Fetal liver genotype/variation: Hmga2-/- age: E14.5
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Growth protocol |
Lin-Sca1+cKit+ cells from fresh tissues (E14.5 FL or adult bone marrow) were isolated by FACS
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Extracted molecule |
total RNA |
Extraction protocol |
RNA was isolated using the RNeasy Mini Spin Columns (QIAGEN) according to the manufacturer's instructions
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Label |
biotin
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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).
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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.
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Scan protocol |
GeneChips were scanned using the Affymetrix Genechip Scanner 3000 7G System.
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Description |
Gene expression data from Hmga2 knock-out E14.5 fetal liver HSCs/progenitors
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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).
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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
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Organization name |
BC Cancer Agency
|
Department |
Terry Fox Laboratory
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Street address |
675 West 10th Avenue
|
City |
Vancouver |
State/province |
BC |
ZIP/Postal code |
V5Z1L3 |
Country |
Canada |
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Platform ID |
GPL10740 |
Series (1) |
GSE41758 |
The Lin28b-let-7-Hmga2 axis determines the higher self-renewal potential of fetal haematopoietic stem cells |
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