Sinonasal papillomas are benign epithelial tumors of the sinonasal tract that are associated with a synchronous or metachronous sinonasal carcinoma in a subset of cases. Our group recently identified mutually exclusive
EGFR
mutations and human papillomavirus (HPV) infection in inverted sinonasal papillomas and frequent
KRAS
mutations in oncocytic sinonasal papillomas. We also demonstrated concordant mutational and HPV infection status in sinonasal papilloma-associated sinonasal carcinomas, confirming a clonal relationship between these tumors. Despite our emerging understanding of the oncogenic mechanisms driving formation of sinonasal papillomas, little is currently known about the molecular mechanisms of malignant progression to sinonasal carcinoma. In the present study, we utilized targeted next-generation DNA sequencing to characterize the molecular landscape of a large cohort of sinonasal papilloma-associated sinonasal carcinomas. As expected,
EGFR
or
KRAS
mutations were present in the vast majority of tumors. In addition, highly recurrent
TP53
mutations,
CDKN2A
mutations, and/or
CDKN2A
copy number losses were detected; overall, nearly all tumors (
n
= 28/29; 96.6%) harbored at least one
TP53
or
CDKN2A
alteration.
TERT
copy number gains also occurred frequently (27.6%); however, no
TERT
promoter mutations were identified. Other recurrent molecular alterations included
NFE2L2
and
PIK3CA
mutations and
SOX2
,
CCND1
,
MYC
,
FGFR1
, and
EGFR
copy number gains. Importantly,
TP53
mutations and
CDKN2A
alterations were not detected in matched sinonasal papillomas, suggesting that these molecular events are associated with malignant transformation. Compared to aerodigestive tract squamous cell carcinomas from The Cancer Genome Atlas (TCGA) project, sinonasal papilloma-associated sinonasal carcinomas have a distinct molecular phenotype, including more frequent
EGFR
,
KRAS
, and
CDKN2A
mutations,
TERT
copy number gains, and low-risk human papillomavirus (HPV) infection. These findings shed light on the molecular mechanisms of malignant progression of sinonasal papillomas and may have important diagnostic and therapeutic implications for patients with advanced sinonasal cancer.