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Sample GSM7577789 Query DataSets for GSM7577789
Status Public on Jan 11, 2024
Title scRNA-Seq_TCRb+_Tcells_PBS1
Sample type SRA
 
Source name T cells from tumors
Organism Mus musculus
Characteristics tissue: T cells from tumors
cell type: TCR-b+ T cells
genotype: Foxp3-EGFP-DTR
treatment: PBS
Treatment protocol Animals were administered PBS or DTx as indicated
Growth protocol Syngeneic B16-F10 melanoma cells were subcutaneously implanted into Foxp3EGFP-DTR mice and ablated Treg cells through administration of DTx. T cells were isolated by FACS and subjected to RNA-Seq analysis
Extracted molecule polyA RNA
Extraction protocol Single-cell suspensions were purified by FACS-sorting of total TCR-b+ T cells from tumors of PBS- or DTx-treated Foxp3-EGFP-DTR animals. Cell suspensions were subjected to scRNA-Seq using the Chromium 10x scRNA-Seq platform
Chromium 10x scRNA-Seq 5’ library preparation with TCR enrichment was performed according to manufacturer's instructions
Samples were individually barcoded according to Chromium 10x 5' kit instructions
 
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description Cells were isolated by fluorescence-activated cell sorting and subjected to sc-RNA-Seq using the Chromium 10x scRNA-Seq platform, barcoded and sequenced
Data processing Chromium 10x libraries were demultiplexed and subjected to Chromium cellranger analysis as per manufacturer instructions
Cellranger gene expression profiles were analysed using Seurat
Assembly: mm9
Supplementary files format and content: tab-delimited text files include normalised gene expression values
 
Submission date Jul 07, 2023
Last update date Jan 11, 2024
Contact name Rahul Roychoudhuri
E-mail(s) rr257@cam.ac.uk
Organization name University of Cambridge
Department Department of Pathology
Lab Roychoudhuri Laboratory
Street address Tennis Court Road
City Cambridge
ZIP/Postal code CB2 1QP
Country United Kingdom
 
Platform ID GPL24247
Series (2)
GSE236824 Acquisition of suppressive function by CD4+ conventional T cells limits anti-tumor immunity driven by Treg depletion [scRNA-seq]
GSE236825 Acquisition of suppressive function by CD4+ conventional T cells limits anti-tumor immunity driven by Treg depletion.
Relations
BioSample SAMN36359258
SRA SRX20951790

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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