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Colorectal Cancer Cell Surface Protein Profiling Using an Antibody Microarray and Fluorescence Multiplexing
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Decoding epithelial-T cell interactions in colorectal cancer through single-cell and spatial transcriptomics.

Rentao Yu1, Xinyu Lu2, Zhuangzhuang Yue3

  • 1Department of Gastrointestinal Surgery, Chongming Hospital Affiliated to Shanghai University of Medicine and Health Sciences, Shanghai, 202150, China.

Discover Oncology
|November 28, 2025
PubMed
Summary
This summary is machine-generated.

This study reveals structured spatial communication between epithelial and CD8+ T cells in colorectal cancer (CRC), identifying key signaling pathways for potential therapeutic targets in precision medicine.

Keywords:
Colorectal cancerEpithelial cellSingle-cell RNA sequencingSpatial transcriptomicsT cellTumor microenvironment

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Area of Science:

  • Oncology
  • Immunology
  • Genomics

Background:

  • Colorectal cancer (CRC) is characterized by genetic heterogeneity and complex immune microenvironments.
  • Single-cell RNA sequencing (scRNA-seq) has identified diverse cell subsets, but their spatial interactions are unclear.

Purpose of the Study:

  • To integrate scRNA-seq and spatial transcriptomics for a comprehensive analysis of CRC epithelial and T cell heterogeneity.
  • To characterize intercellular communication networks and spatial architecture within the CRC tumor microenvironment.

Main Methods:

  • Integrated scRNA-seq and spatial transcriptomics from 36 CRC patients using Seurat and Harmony.
  • Employed CytoTRACE and Slingshot for cell trajectory inference, CellChat for ligand-receptor analysis, and CellTrek for spatial mapping.

Main Results:

  • Identified nine epithelial and eight T cell subpopulations with distinct states and trajectories.
  • Discovered enriched communication between CD8+ T_GZMK cells and epithelial cells via CEACAM, APP, and MIF signaling.
  • Confirmed spatial colocalization of CD8+ T_GZMK and PTP4A3+ epithelial cells, forming organized immune-niches.

Conclusions:

  • Provides an integrated single-cell and spatial atlas of CRC, detailing epithelial-T cell communication and spatial organization.
  • Highlights potential therapeutic targets and biomarkers for CRC precision treatment based on identified signaling pathways.