|
| Status |
Public on Feb 20, 2023 |
| Title |
R2 |
| Sample type |
SRA |
| |
|
| Source name |
bone marrow-derived monocytes (BMDMs)
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: bone marrow-derived monocytes (BMDMs)
treatment: M-CSF, RANKL
|
| Treatment protocol |
For osteoclast induction, BMDMs were cultured into complete media with 50 ng/ml recombinant soluble murine M-CSF (PeproTech, 315-02),100 ng/ml recombinant soluble murine RANKL. Then the cells were treated with either vehicle or dBRD9, JQ1, DEX, iBRD9.
|
| Growth protocol |
Bone marrow cells were harvested from murine tibias and femurs of C57BL/6 mice and cultured in α-minimum essential medium containing 10% FBS and 1% penicillin-streptomycin overnight.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
BMDMs was collected for RNA isolation using TRIzol.
Libraries were prepared using NEBNext Ultra II RNA Library Prep Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Raw reads were trimmed using Cutadapt.
Trimmed reads were aligned with the GRCm39 genome using HISAT2
Read count extraction and normalization were performed using htseq-count.
Assembly: Mus_musculus.GRCm39.
Supplementary files format and content: Excel files include read count and fpkm values for each sample
|
| |
|
| Submission date |
Jan 05, 2023 |
| Last update date |
Feb 20, 2023 |
| Contact name |
Jiahui Du |
| E-mail(s) |
[email protected]
|
| Organization name |
Shanghai Jiao Tong University
|
| Street address |
Zhizaoju Road 639
|
| City |
Shanghai |
| ZIP/Postal code |
90033 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE222239 |
Function of BRD9 during osteoclastogenesis [RNA-seq-2] |
| GSE222240 |
Function of BRD9 during osteoclastogenesis |
|
| Relations |
| BioSample |
SAMN32601390 |
| SRA |
SRX18944607 |
