|
| Status |
Public on Jul 04, 2020 |
| Title |
Resting_M0_1 |
| Sample type |
SRA |
| |
|
| Source name |
Resting Macrophages
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: Bone Marrow derived Macrophages
tissue: Bone Marrow
|
| Treatment protocol |
Resting Macrophages (M0), or Macrophages stimulated with with 50 ng ml–1 IFN-γ and 20 ng ml-1 LPS (γ+LPS), were treated with 50 μM T863 for DGAT1 inhibition
|
| Growth protocol |
Bone marrow cells were grown in complete medium (RPMI-1640 medium containing 10 mM glucose, 2 mM L-glutamine, 100 U ml–1 penicillin-streptomycin and 10% FCS) with 20 ng ml–1 murine macrophage colony- stimulating factor 1 (CSF-1; Peprotech) for 7 days, and supplemented with CSF-1 on days 3 and 5.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the PureLink RNA Mini kit (Ambion) and quantified using Qubit 2.0.
Libraries were prepared using the NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina (New England Biolabs) and sequenced using the HiSeq 3000 (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
Resting Macrophages
|
| Data processing |
Sequenced libraries were analyzed with SnakePipes 1.2.0
Raw mapped reads were processed in R (Lucent Technologies) with DESeq2 (Love et al., 2014), to determine differentially expressed genes and generate normalized read counts to visualize as heatmaps using Morpheus (Broad Institute).
Genome_build: GRCm38
Supplementary_files_format_and_content: raw read counts matrix containing count for every sample
|
| |
|
| Submission date |
Feb 19, 2020 |
| Last update date |
Jul 04, 2020 |
| Contact name |
Immunometabolism Department |
| E-mail(s) |
jcurti29@jhmi.edu
|
| Organization name |
Johns Hopkins University
|
| Department |
Immunometabolism
|
| Street address |
1650 Orleans Street
|
| City |
Baltimore |
| State/province |
Maryland |
| ZIP/Postal code |
21287 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (1) |
| GSE145523 |
Triacylglycerol synthesis enhances macrophage inflammatory function |
|
| Relations |
| BioSample |
SAMN14134895 |
| SRA |
SRX7748668 |
