|
| Status |
Public on Aug 22, 2020 |
| Title |
Peritoneum - WT 2 hr Effero |
| Sample type |
SRA |
| |
|
| Source name |
Peritoneum
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: MerTK +/+
cell type: Peritoneal Macrophage
treatment: 2 hours co-culture ACs
|
| Treatment protocol |
Macrophages were isolated by lavage of the peritoneum, plated for 1 hour in RPMI medium, and washed to remove non-adherent cells. Macrophages were then cultured with UV-induced apoptotic cells (ACs) for different time points.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Peritoneal macrophages were suspended in a single-cell suspension and processed following the 10x Genomics Pipeline.
Libraries were prepared following the 10x Genomics Pipeline for Illumina libraries.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
WT_2hr
Single-cell RNA-seq
|
| Data processing |
cellranger_v2.2 count
cellranger v2.2 aggr
Seurat v3.0
Monocle v2.1
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: aggregated_raw_counts.tsv: Seurat Raw Count Matrix
|
| |
|
| Submission date |
Aug 21, 2020 |
| Last update date |
Aug 22, 2020 |
| Contact name |
Behram Sarosh Radmanesh |
| E-mail(s) |
behram.radmanesh@northwestern.edu
|
| Organization name |
Northwestern University
|
| Street address |
633 Clark St
|
| City |
Evanston |
| State/province |
IL |
| ZIP/Postal code |
60208 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE156234 |
Single-Cell RNA Sequencing Uncovers Heterogenous Transcriptional Signatures in Macrophages during Efferocytosis |
|
| Relations |
| BioSample |
SAMN15879650 |
| SRA |
SRX8985519 |
