|
| Status |
Public on Feb 02, 2024 |
| Title |
HSC in NASH, AregFl/Fl control |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Mus musculus |
| Characteristics |
tissue: liver
cell type: Hepatic stellate cells
genotype: AregFl/Fl
background strain: C57BL/6
Sex: male
disease state: NASH
|
| Treatment protocol |
Single cell RNA-seq of hepatic stellate cells enriched via FACS from the liver of AregFl/Fl (control) or AregFl/Fl Foxp3YFP-cre (conditional knockout) mice fed a NASH diet.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Viable nucleated cells were sorted using a FACS Aria cell sorter
10x Genomics Single Cell Gene Expression 3’ workflow
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Libraries were then sequenced on an Illumina NovaSeq 6000
CellRanger 6.1.2 was used to process the sequencing data
Analysis was subsequently performed using Seurat 4.2.0
Supplementary files format and content: .tar, tar archive containing the main outputs from a cellranger count analysis
|
| |
|
| Submission date |
Jun 02, 2023 |
| Last update date |
Feb 02, 2024 |
| Contact name |
Nicholas Arpaia |
| E-mail(s) |
na2697@cumc.columbia.edu
|
| Organization name |
Columbia University
|
| Department |
Microbiology & Immunology
|
| Street address |
701 West 168th Street
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE208706 |
Amphiregulin from regulatory T cells promotes liver fibrosis and insulin resistance in non-alcoholic steatohepatitis |
| GSE234073 |
Amphiregulin from regulatory T cells promotes liver fibrosis and insulin resistance in non-alcoholic steatohepatitis [scHSC] |
|
| Relations |
| BioSample |
SAMN35573963 |
| SRA |
SRX20585732 |
