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Elevated APE1 protein expression in CIS corresponded with reduced survival (p=0.0243). Increased APE1 gene expression in stage T4a HNSCC was associated with reduced patient survival (p0.015). Increased PPARGC1A in invasive tumor correlated with reduced survival (p=0.0281). Patients with lymph node invasion at diagnosis had significantly increased APE1 protein in the primary sites (p0.05). Patients with poorly differentiated invasive tumors had reduced PPARGC1A in CIS proximal to the invasive tumor and had elevated DCN and SOD3