|
| Status |
Public on Mar 24, 2016 |
| Title |
Single HSC H12_young |
| Sample type |
SRA |
| |
|
| Source name |
Young Vwf-eGFP mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
age: young (2-3 months)
tissue: Bone marrow
cell type: hsc
phenotype: 7AAD-Lin<->Sca-1+c-Kit+150+CD48<->
|
| Treatment protocol |
Cell populations isolated by FACS sorting from mouse Bone marrow
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
From single FACS sorted cells, cDNA was generated according to C1™ Single-Cell Auto Prep IFC for mRNA Sequencing (Fluidigm) using the Fluidigm C1 system and following manufacturer protocol.
Illumina sequenecing libraries were constructed in 96-well plates using the Illumina Nextera XT DNA Sample Preparation kit according to a protocol supplied by Fluidigm.
RNA-Seq samples were sequenced on Illumina HiSeq 2000
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Vwf-eGFP reporter mouse
|
| Data processing |
RNA-Seq: Alignment by Tophat (version 2.0.10) to mm10 reference genome.
RNA-Seq: Non-uniquely mapped reads were discarded.
RNA-Seq: Expression values were quantified based on RefSeq using rpkmforgenes (Ramskold et al., 2009).
Genome_build: mm10
Supplementary_files_format_and_content: Read counts and RPKM values from RNA sequencing
|
| |
|
| Submission date |
Jul 09, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Claus Nerlov |
| E-mail(s) |
claus.nerlov@imm.ox.ac.uk
|
| Organization name |
Weatheral Institute of Molecular Medicine
|
| Department |
MRC Molecular Haematology Unit
|
| Lab |
Nerlov Laboratory
|
| Street address |
John Radcliffe Hospital, University of Oxford
|
| City |
Oxford |
| ZIP/Postal code |
OX3 9DS |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE70657 |
Single cell global gene profiling reveals molecular and functional platelet bias of aged hematopoietic stem cells |
|
| Relations |
| BioSample |
SAMN03852478 |
| SRA |
SRX1089729 |
