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Series GSE150876 Query DataSets for GSE150876
Status Public on Aug 12, 2020
Title Coupled single cell RNA-seq and intracellular protein activity reveals immune-suppressive role of Trem2 in cancer II
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Cell function and activity is regulated through integration of signaling, epigenetic, transcriptional and metabolic pathways. Here we introduce INs-seq, an integrated technology for massively parallel recording of single-cell RNA-sequencing (scRNA-seq) and intracellular protein activity. We demonstrate the broad utility of INs-seq for reveling new immune subsets by profiling different intracellular signatures of immune signaling, transcription-factor combinations and metabolic activity. Comprehensive mapping of Arginase 1 expressing cells within tumor models, a metabolic immune signature of suppressive activity, discovers a novel Arg1+ Trem2+ regulatory myeloid cell (Mreg) and identifies markers, metabolic activity and pathways associated with these cells. Genetic ablation of Trem2 in mice inhibits the accumulation of intra-tumoral Mreg cells, leading to a marked decrease in dysfunctional CD8+ T cells and reduced tumor growth. This study establishes INs-seq as a broadly applicable technology for elucidating integrated transcriptional and intra-cellular maps, and identifies the molecular signature of myeloid suppressive cells in tumors.
Overall design 9 different 10x experiments were done, with 20 samples in total. No repeats.
Contributor(s) Katzenelenbogen Y, Sheban F, Yalin A, Yofe I, Svetlichnyy D, Jaitin DA, Borenstein C, Moshe A, Keren-Shaul H, Cohen M, Wang S, Li B, David E, Salame TM, Weiner A, Amit I
Citation(s) 32783915
Submission date May 19, 2020
Last update date Nov 11, 2020
Contact name Ido Amit
Phone 972-8-9343338
Organization name Weizmann Institute of Science
Department Immunology
Street address 234 Herzl st.
City Rehovot
ZIP/Postal code 760001
Country Israel
Platforms (2)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (20)
GSM4560059 20190410_Fixed_CD11c
GSM4560060 20190410_Fresh_CD11c
GSM4560061 20190613_Fixed_FOXP3
This SubSeries is part of SuperSeries:
GSE150877 Coupled single cell RNA-seq and intracellular protein activity reveals immune-suppressive role of Trem2 in cancer
BioProject PRJNA633902
SRA SRP262359

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

Supplementary file Size Download File type/resource
GSE150876_RAW.tar 376.6 Mb (http)(custom) TAR (of TAR)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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