|
| Status |
Public on Feb 19, 2024 |
| Title |
Sample24_BMDM cells, Glucocorticoid stimulated, 24h, Acod1 KO, replicate #4 |
| Sample type |
SRA |
| |
|
| Source name |
Bone marrow derived macrophages
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Bone marrow derived macrophages
strain background: C57BL/6J
cell type: Macrophages
genotype: Acod1 KO
treatment: Glucocorticoids
|
| Treatment protocol |
Cells were treated with 100nM dexamethasone and/or 100ng LPS for 24 hours
|
| Growth protocol |
Bone marrow was isolated from the femurs and tibias of 8- to 12-week old C57BL/6J mice (Janvier Labs) or Irg1+/+ or Irg1-/- mice (Jackson Research Laboratory). Following erythrocyte lysis, cells were incubated at 37°C with 5% CO2 in bone marrow-derived macrophage (BMDM)- medium constituting of DMEM (GIBCO) supplemented with 10% fetal calf serum (Biochrom), 1% penicillin/streptomycin (GIBCO) and 10% M-CSF-containing L929-supernatant
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Rneasy Kit from QIAgen
Novogene NGS RNA Library Prep Set (PT042)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Sequence reads were mapped to GrCM38/mm10 reference genome using the STAR aligner
Read count extraction were performed using featureCounts
Assembly: mm10
Supplementary files format and content: tab delimited text file containing raw read counts for each sample
|
| |
|
| Submission date |
Dec 15, 2023 |
| Last update date |
Feb 19, 2024 |
| Contact name |
Artur Wilhelm |
| E-mail(s) |
Artur.wilhelm@charite.de
|
| Organization name |
Charite Berlin
|
| Department |
Rheumatology and clinical immunology
|
| Lab |
AG Krönke
|
| Street address |
Virchowweg 11
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE250274 |
Metabolic rewiring promotes anti-inflammatory effects of glucocorticoids |
|
| Relations |
| BioSample |
SAMN38855014 |
| SRA |
SRX22898467 |
