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Series GSE159892 Query DataSets for GSE159892
Status Public on Nov 01, 2022
Title Single-cell transcriptional profiling reveals anti-CTLA-4 therapy remodels the intestinal immune landscape in inflammation-prone conditions
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Aim: Understanding of irAE-driving mechanisms using an irAE animal model
Methods: Adult Stat3Δ/Δ (STAT3 is deleted from DCs via the Cre-recombinase system) and Stat3+/+ mice were challenged with B16-OVA melanoma tumors, treated biweekly for 2 weeks with anti-CTLA-4 (clone 9H10) or control IgG. Colonic lamina propria (LP) immune cells were isolated and sorted for live CD45+ cells by fluorescence-activated cell sorting (FACS) 18-19 d after tumor establishment and following completion of therapy. Colonic LP immune cells were subjected to single-cell RNA sequencing (scRNAseq, 10x Genomics).
Results: The scRNAseq data, representing 14039 cells from our 4 experimental groups, were concatenated and graphed using unsupervised clustering to identify transcriptionally-related populations. This resulted in elaboration of 19 discrete clusters, including 16 immune and 3 non-immune clusters.
Conclusion:This work provides mechanistic insight into irAE development and models for pre-clinical investigation.
 
Overall design scRNAseq of CD45+ colonic lamina propria (LP) immune cells purified from melanoma-bearing Stat3+/+ and Stat3Δ/Δ mice (Stat3Δ/Δ mice = Stat3 deleted from CD11c+ cells by the Cre recombinase system) treated with anti-CTLA-4 or control IgG
 
Contributor(s) Zhou Y, Medik YB, Zamler DB, Chen S, Watowich SS
Citation(s) 36367776
Submission date Oct 22, 2020
Last update date Mar 22, 2024
Contact name Yifan Zhou
E-mail(s) yfan_zhou@sina.com
Organization name Tsinghua University
Department School of Medicine
Street address No. 30 Shuangqing Road
City Beijing
ZIP/Postal code 100084
Country China
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (4)
GSM4849544 WTI
GSM4849545 WTC
GSM4849546 C3KOI
Relations
BioProject PRJNA670732
SRA SRP288209

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE159892_Colon_0.6_0730_processed_seurat.RDS.gz 1.9 Gb (ftp)(http) RDS
GSE159892_RAW.tar 136.2 Mb (http)(custom) TAR (of MTX, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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