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Sample GSM7458085 Query DataSets for GSM7458085
Status Public on Feb 02, 2024
Title Treg, spleen_HTO
Sample type SRA
 
Source name spleen
Organism Mus musculus
Characteristics tissue: spleen
cell type: Treg cells
strain: C57BL/6
Sex: male
genotype: Foxp3GFP
treatment: multiplexed sample: control and NASH
Treatment protocol Single cell RNA-seq (cell hashing and TCRseq) of Treg cells enriched via FACS from the liver, spleen and visceral adipose tissue from Foxp3GFP mice fed normal chow or a NASH diet.
Extracted molecule total RNA
Extraction protocol Viable CD4+GFP+ cells were sorted using a FACS Aria cell sorter
10x Genomics Single Cell 5’ workflow for gene expression, cell hashing, and full-length V(D)J T cell receptor sequencing
 
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description Hashtag 1-3 are normal diet and Hashtag 4-7 are NASH.
NT016
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 file containing processed CellRanger output for barcodes, features, matrix
 
Submission date Jun 06, 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
GSE234244 Amphiregulin from regulatory T cells promotes liver fibrosis and insulin resistance in non-alcoholic steatohepatitis [scTreg]
Relations
BioSample SAMN35640764
SRA SRX20601687

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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