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Series GSE188548 Query DataSets for GSE188548
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
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
 
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)
 
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
Submission date Nov 10, 2021
Last update date May 01, 2022
Contact name Arjun Arkal Rao
E-mail(s) arjunarkal.rao@ucsf.edu
Organization name University of California, San Francisco
Department CoLabs
Lab Data Sciences CoLab
Street address 505 Parnassus Ave, S-447
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (3)
GSM5685341 WT tumor-bearing blood
GSM5685342 WT tumor
GSM5685343 FoxP3 DTR tumor
Relations
BioProject PRJNA779401
SRA SRP345423

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Supplementary file Size Download File type/resource
GSE188548_RAW.tar 112.2 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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