The top 20 most mutated genes with the highest SNV frequencies in BAA HNSCC were CDKN2A (37%), CSMD3 (17%), FAM135B (14.9%), LRP1B (14.9%), FAT1 (10.6%), PKHD1L1 (10.6%), and the frequencies of 14 other genes were less than 10.0%. Here, CDKN2A is linked to head and neck squamous cell carcinoma.