The average β values for p16, COAL1A2, DAPK, CCBE1, DCC, SALL3, NPY, TAC1, SST, GALR1, GALR2, NPY1R, NPY2R, NPY4R, NPY5R, TACR1, HCRTR1, HCRTR2, SSTR1, NPDDR1, NPFFR2, VEGFR1, VEGFR2, and VEGFR3 methylation were significantly higher in the HNSCC samples than in the normal samples (p < 0.05). Here, FLT1 is linked to head and neck squamous cell carcinoma.