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Abstract
Immunogenomic alterations of head and neck squamous cell carcinomas stratified by smoking status.
Highlights
To confirm the specific immune phenotypes that were associated with smoking in head and neck squamous cell carcinoma (HNSCC) at a higher resolution, we accessed and reanalyzed a sophisticated single-cell RNAsequencing dataset of HNSCC with comprehensive infiltrated immune cell profiling.[9]
It is worth noting that we identified a unique subset of CD8T cells (CD8T-IFI) that express high levels of interferon-induced protein with tetratricopeptide repeats (IFIT) genes (Figure 2E)
The statistical analysis showed the smoking HNSCC samples had a lower fraction of CD8T-IFI, NK cell, and pDC, all of which were generally considered as interferons-production cells (Figure 2F)
Summary
Revealed that interferon-mediated signaling signature scores significantly decreased in smoking HNSCC samples (Figure 1H). Our results demonstrated a strong correlation between smoking and dysregulated interferon signaling pathways in HNSCC. To characterize the cell-level difference of immunological response to tumors between smoking and non-smoking HNSCC samples, we employed two cell-deconvolution algorithms (CIBERSORT7 and XCELL8) to estimate infiltrating immune cell abundances based on the RNA-seq profile of TCGA HNSCC dataset.
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