Tumor microenvironment characterization in head and neck squamous carcinoma reveals distinct genomic alterations and clinical outcomes

Run Shi,Xuanwen Bao,Jing Sun,Minglun Li,Claus Belka,Shun Lu

doi:10.1002/ctm2.187

Abstract

Tumor microenvironment characterization in head and neck squamous carcinoma reveals distinct genomic alterations and clinical outcomes

Highlights

Dear Editor, Head and neck squamous carcinoma (HNSC) is one of the most common malignancies worldwide
Based on the abundance matrix of 36 cell types involved in tumor microenvironment (TME), a fan phylogram was generated to show their similarity and distance (Figure 1A), and negative matrix factorization (NMF) consensus clustering was performed to divide 520 The Cancer Genome Atlas (TCGA) HNSC samples into three clusters (C1-3) with an optimal k value of 3 (Figure 1B)
Principal coordinates analysis (PCoA) demonstrated that 520 samples were clearly separated into three distinct TME clusters (Figure 1D)

Summary

Introduction

Dear Editor, Head and neck squamous carcinoma (HNSC) is one of the most common malignancies worldwide. Based on the abundance matrix of 36 cell types involved in TME, a fan phylogram was generated to show their similarity and distance (Figure 1A), and NMF consensus clustering was performed to divide 520 TCGA HNSC samples into three clusters (C1-3) with an optimal k value of 3 (Figure 1B). A stacked barplot depicts the distinct patterns of the relative proportion of TME cells in the three identified clusters (Figure 1C). PCoA demonstrated that 520 samples were clearly separated into three distinct TME clusters (Figure 1D).

Objectives

Results

Conclusion