articleCancer CellJan 1, 2026HYBRID OA

Single-cell integration and multi-modal profiling reveals phenotypes and spatial organization of neutrophils in colorectal cancer

VMValentin MarteauNNNiloofar NematiKHKristina HandlerDRDeeksha RajuAKAlexander Kirchmair

Innsbruck Medical University · Universität Innsbruck · +11 more institutions

PubMed
Indexed incrossrefpubmed

Abstract

The immune composition of the tumor microenvironment has a major impact on the therapy response in patients with colorectal cancer. Here, we built an atlas with 4.27 million single cells from 1,670 patient samples and complemented it with single-cell profiles from 266 patients, including cells with low mRNA content, spatial transcriptomics from 3.7 million cells, and protein profiles from 0.7 million cells. The analysis of the atlas allows tumor classification into immune desert, B cell enriched, T cell enriched, and myeloid cell enriched immune phenotypes. Within the myeloid compartment, we identify consensus myeloid gene expression programs with four immunomodulatory programs, and uncover a subpopulation of…

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8
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105.07
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100%
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47

Topics & keywords

Topics
Keywords
  • Immune system
  • Myeloid
  • Transcriptome
  • Phenotype
  • Colorectal cancer
  • Tumor microenvironment
  • Gene expression profiling
  • Myeloid cells
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