|
| Status |
Public on Dec 01, 2023 |
| Title |
KO2 |
| Sample type |
SRA |
| |
|
| Source name |
bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
tissue: bone marrow
cell type: granulocyte-monocyte progenitor
genotype: MST1 deficient mice
|
| Treatment protocol |
Mouse granulocyte-monocyte progenitor were not subjected to any drug treatment.
|
| Growth protocol |
Granulocyte monocyte progenitor sorted from mouse bone marrow were placed in 1640 medium containing 10% serum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol and 0.2-fold volume of trichloromethane were added to the cells, and isopropanol and absolute ethanol were added to precipitate the extracted RNA. The RNA was dissolved with water and the RNA concentration and purity were detected with nano drop.
RNA was enriched with magnetic beads with oligo (DT), then cDNA was synthesized using mRNA as a template, double stranded cDNA was purified and amplified by PCR.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Clean data were filtered and quality controlled from raw data, then alignment step was performed.
Novel transcripts prediction
Gene expression analysis
Differential expression analysis
Gene Ontology enrichment analysis and pathway enrichment analysis
Assembly: mm10
Supplementary files format and content: excel files include FPKM values of gene for each sample
Supplementary files format and content: excel files include FPKM values of transcript for each sample
|
| |
|
| Submission date |
Sep 12, 2022 |
| Last update date |
Dec 01, 2023 |
| Contact name |
Anna Jia |
| E-mail(s) |
11132021062@bnu.edu.cn
|
| Organization name |
BNU
|
| Street address |
Beijing Normal University
|
| City |
Beijing |
| ZIP/Postal code |
100875 |
| Country |
China |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE213143 |
Granulocyte-monocyte progenitor (GMP) RNA-seq in wild type and MST1-deficient mice. |
|
| Relations |
| BioSample |
SAMN30805398 |
| SRA |
SRX17532089 |
