Supplementary Figure S3 from Development of a Clinical Assay to Guide Patient Therapy in HPV-Associated Head and Neck Cancer

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Supplemental Figure 3. Boxplot of NF- κB values across the three cluster subtypes. By unsupervised consensus clustering and self-organizing map (SOM) approaches, we identified three distinct biological subtypes within HPV-positive HNSCC: Cl1 (immune-related), Cl2 (epithelial-mesenchymal transition [EMT]-related), and Cl3 (proliferation-related). This classification holds prognostic significance, with Cl1 exhibiting the most favorable survival outcomes, Cl2 associated with the poorest prognosis, and Cl3 displaying an intermediate survival rate [Locati, 2019]. In contrast to recent studies that classified HPV-related HNSCC into immune and keratinocyte subtypes, our analysis confirmed the immune-associated subtype while further resolving the keratinocyte group into two distinct clusters with differing biological profiles and prognostic implications. NF-κB signature is significantly activated in Cl1-immune related cluster compared to the other 2 clusters: A) Metanalyisis-HPV267 cohort (1); B) BD2-HPV286 cohort (2).

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