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Status |
Public on Jan 11, 2024 |
Title |
scRNA-Seq_TCRb+_Tcells_PBS1 |
Sample type |
SRA |
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|
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
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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
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|
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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 |