|
| Status |
Public on Nov 01, 2023 |
| Title |
PE_H2BGFP_high_1 |
| Sample type |
SRA |
| |
|
| Source name |
Bone marrow B-cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Bone marrow B-cells
genotype: PAX5-ELN H2B-GFP
treatment: Doxycycline
phenotype: quiescent
time: 35 days
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was harvested using Quiagen Micro-kit.
RNA libraries for RNA-seq were prepared SMART-Seq® v4 Ultra® Low Input RNA Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
Fastq was cleaned using Fastp.
Read alignment was performed on the mm10 assembly of the mouse genome using the genome mappers STAR in two pass mode.
Reads was counted with featurecounts
Normalization and differential expression of RNAseq data sets was performed by DeSeq2
Assembly: mm10
Supplementary files format and content: tab-delimited text files include raw reads values for each Sample
|
| |
|
| Submission date |
Aug 10, 2022 |
| Last update date |
Nov 01, 2023 |
| Contact name |
Vincent Fregona |
| Organization name |
INSERM
|
| Department |
31000
|
| Lab |
Centre de Recherche en Cancerologie de Toulouse
|
| Street address |
2 avenue hubert curien
|
| City |
TOULOUSE |
| State/province |
Terres australes françaises |
| ZIP/Postal code |
31100 |
| Country |
France |
| |
|
| Platform ID |
GPL21626 |
| Series (2) |
| GSE210925 |
Cell quiescence and reprogramming are distinctive features of pre-leukemic stem cells [H2Bgfp] |
| GSE210926 |
Stem cell-like reprogramming is required for leukemia initiating activity in B-ALL |
|
| Relations |
| BioSample |
SAMN30237476 |
| SRA |
SRX17023257 |
