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Updated: Jun 15, 2025
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Peptide:MHC Tetramer-based Enrichment of Epitope-specific T cells
Published on: October 22, 2012
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Exploring the Expression and Function of T Cell Surface Markers Identified through Cellular Indexing of
Joon Yeon Hwang1, Youngtaek Kim1, Kwangmin Na1
1Department of Research Support, Yonsei Biomedical Research Institute, Yonsei University College of Medicine, Seoul, Korea.
Yonsei Medical Journal
|August 28, 2024
Summary
Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq) data reveals protein expression patterns improve immune cell identification. This enhances understanding of immune cell heterogeneity in disease.
Area of Science:
- Immunology
- Bioinformatics
- Genomics
Background:
- Understanding immune cell heterogeneity is crucial for cancer research.
- Current methods may not fully capture the diversity of immune cells.
Purpose of the Study:
- To investigate the utility of combined protein and mRNA expression data for detailed immune cell identification.
- To enhance the understanding of the immune landscape in cancer.
Main Methods:
- Analysis of publicly available Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq) data.
- Utilized Seurat package for quality control, preprocessing, and Uniform Manifold Approximation and Projection for visualization.
- Investigated protein and mRNA expression levels in peripheral blood mononuclear cells (PBMCs).
Main Results:
- Protein expression patterns provided better discrimination of T cell subsets compared to mRNA alone.
- Identified novel T cell subsets using Weighted Nearest Neighbor clustering.
- Validated CD26 and CD99 markers for improved CD4+ and CD8+ T cell identification.
Conclusions:
- CITE-seq data confirms protein expression enhances immune cell precision.
- Findings improve understanding of immune cell heterogeneity.
- Provides insights into immune responses in health and disease.
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