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GEO help: Mouse over screen elements for information. |
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Status |
Public on Apr 27, 2022 |
Title |
Holistic Characterization of Tumor Monocyte-to-Macrophage Differentiation Integrates Distinct Immune Phenotypes in Kidney Cancer |
Organism |
Mus musculus |
Experiment type |
Expression profiling by high throughput sequencing
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Summary |
The tumor immune microenvironment (TIME) is commonly infiltrated by diverse collections of myeloid cells. Yet, the complexity of myeloid cell identity and plasticity has challenged efforts to define bona fidepopulations and determine their connections to T cell functionand their relation to patient outcome. Here we leverage single-cell RNA-sequencing (scRNA-seq) analysis of several mouse and human tumors and find that monocyte-macrophage diversity is characterized by a combination of conserved lineage states as well as transcriptional programs accessed along the differentiation trajectory. Using mouse models, we also find that tumor monocyte-to-macrophage progression is profoundly tied to regulatory T cell (Treg) abundance. Importantly, in human kidney cancer, heterogeneity in macrophage accumulation and myeloid composition corresponded to variancein, not only Tregdensity, but also the quality of infiltrating CD8+T cells.In this way, holistic analysis of monocyte-to-macrophage differentiation creates a framework for critically different immune states
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Overall design |
3 samples (blood and tumor from control mice injected with B16-F10, and tumor from a Treg-depleted mouse injected with B16-F10)
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Contributor(s) |
Mujal AM, Combes AJ, Rao AA, Binnewies M, Samad B, Tsui J, Boissonnas A, Pollack JL, Argüello RJ, Ruhland MK, Barry KC, Chan V, Krummel MF |
Citation(s) |
35181780 |
NIH grant(s) |
Grant ID |
Grant title |
Affiliation |
Name |
R01 CA197363 |
Anti-Tumor Mechanisms of Intratumoral Stimulatory Dendritic Cells |
University of California San Francisco |
MATTHEW F KRUMMEL |
U01 CA217864 |
Integrating targeted and immunotherapy to treat genetically heterogeneous cancers |
University of California San Francisco |
MATTHEW F KRUMMEL |
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Submission date |
Nov 10, 2021 |
Last update date |
May 01, 2022 |
Contact name |
Arjun Arkal Rao |
E-mail(s) |
arjunarkal.rao@ucsf.edu
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Organization name |
University of California, San Francisco
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Department |
CoLabs
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Lab |
Data Sciences CoLab
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Street address |
505 Parnassus Ave, S-447
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City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94143 |
Country |
USA |
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Platforms (1) |
GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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Samples (3) |
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Relations |
BioProject |
PRJNA779401 |
SRA |
SRP345423 |
Supplementary file |
Size |
Download |
File type/resource |
GSE188548_RAW.tar |
112.2 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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