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| 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
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| 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.
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| Overall design |
9 different 10x experiments were done, with 20 samples in total. No repeats.
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| 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 |
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| Submission date |
May 19, 2020 |
| Last update date |
Nov 11, 2020 |
| Contact name |
Ido Amit |
| E-mail(s) |
ido.amit@weizmann.ac.il
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| Phone |
972-8-9343338
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| Organization name |
Weizmann Institute of Science
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| Department |
Immunology
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| Street address |
234 Herzl st.
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| City |
Rehovot |
| ZIP/Postal code |
760001 |
| Country |
Israel |
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| Platforms (2) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (20)
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| This SubSeries is part of SuperSeries: |
| GSE150877 |
Coupled single cell RNA-seq and intracellular protein activity reveals immune-suppressive role of Trem2 in cancer |
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| Relations |
| BioProject |
PRJNA633902 |
| SRA |
SRP262359 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE150876_RAW.tar |
376.6 Mb |
(http)(custom) |
TAR (of TAR) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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