|
| Status |
Public on May 29, 2024 |
| Title |
RBG26222_Plate_1_KO |
| Sample type |
SRA |
| |
|
| Source name |
bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
tissue: bone marrow
cell type: ESLAM
genotype: KO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Bone marrow cells were harvested from STAT5KO and WT control mice, single ESLAM HSCs was FACS sorted into 2.3ul 0.2% Triton-100 containg RNAse inhibitor
Tagmentation is carried out using the Illumina Nextera XT DNA sample preparation kit. The protocol is based on the Tagmentation protocol from Fluidigm.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
SLX.14260.i711_i502
|
| Data processing |
RNA-seq reads were aligned to mm10 + ERCC92 using GSNAP (version 2018-03-25) with parameters (-B 5 -t 24 -n 1 -Q -N 1).
Reads in features were counted with htseq-count (HTSeq version 0.9.1) with the parameter (-s no).
Assembly: GRCm38.81
Supplementary files format and content: HTSeq counts text file with raw counts and htseq metrics
Supplementary files format and content: Anndata h5 file with filtered cells and genes and data transformations (in layers)
|
| |
|
| Submission date |
Jan 20, 2023 |
| Last update date |
May 29, 2024 |
| Contact name |
Hugo P. Bastos |
| E-mail(s) |
hpb29@cam.ac.uk
|
| Organization name |
Wellcome - MRC Cambridge Stem Cell Institute
|
| Department |
Haematology
|
| Street address |
Jeffrey Cheah Biomedical Centre, Puddicombe Way
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 0AW |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE223366 |
Maintenance of ESLAM haematopoietic stem cells by tyrosine-unphosphorylated STAT5 and JAK inhibition |
|
| Relations |
| BioSample |
SAMN32815205 |
| SRA |
SRX19107419 |
