GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
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
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
BioProject PRJNA670732
SRA SRP288209

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap