|
| Status |
Public on Apr 04, 2023 |
| Title |
Lin-Sca-1hic-kit+, control 1 |
| Sample type |
SRA |
| |
|
| Source name |
bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
tissue: bone marrow
cell type: hematopoietic stem/progenitor cells (LSK)
genotype: WT
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
WT1
|
| Data processing |
Trimmed reads were mapped to the mouse genome (GRCm39) using hisat2 (v2.2.1) with the following parameters: --no-unal --no-mix --no-discordant
samtools (v1.13) was further used to sort and set the index of highly mapped results and then transfer from sam format to bam format
FeatureCounts (v2.0.3) and DESeq2 were used to perform different gene expression analyses
Assembly: GRCm39
Supplementary files format and content: Read counts for every gene and every sample was calculated by featureCounts (v2.0.3)
|
| |
|
| Submission date |
Apr 04, 2023 |
| Last update date |
Apr 04, 2023 |
| Contact name |
hanxiao Yin |
| E-mail(s) |
yinhx@mail.nankai.edu.cn
|
| Organization name |
nankai university
|
| Street address |
Weijin road 94
|
| City |
Tianjin |
| ZIP/Postal code |
300000 |
| Country |
China |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE203239 |
HDAC6 deacetylates IDH1 to regulate the homeostasis of hematopoietic stem/progenitor cells |
|
| Relations |
| BioSample |
SAMN34067632 |
| SRA |
SRX19863972 |
