1. Comparative transcriptome analysis of sinonasal inverted papilloma and associated squamous cell carcinoma: Out-HOXing developmental genes
- Author
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Michael E. Kupferman, Achim H. Bell, Ehab Y. Hanna, Randal S. Weber, Victor G. Prieto, and Diana Bell
- Subjects
0301 basic medicine ,Adult ,Male ,Cell ,Nose Neoplasms ,Malignant transformation ,Transcriptome ,03 medical and health sciences ,0302 clinical medicine ,Antigens, Neoplasm ,Carcinoma ,Biomarkers, Tumor ,Medicine ,Cluster Analysis ,Humans ,RNA, Neoplasm ,Carbonic Anhydrase IX ,Gene ,Aged ,Aged, 80 and over ,Homeodomain Proteins ,Papilloma, Inverted ,Predictive marker ,business.industry ,Sequence Analysis, RNA ,Gene Expression Profiling ,Genes, Homeobox ,Middle Aged ,medicine.disease ,030104 developmental biology ,medicine.anatomical_structure ,Otorhinolaryngology ,030220 oncology & carcinogenesis ,Cancer research ,Carcinoma, Squamous Cell ,Homeobox ,Papilloma ,Female ,business ,Paranasal Sinus Neoplasms - Abstract
Background Sinonasal papilloma has a tendency toward local destruction, recurrence, and malignant transformation. This study aimed to unravel mechanisms in the malignant transformation of sinonasal papillomas using RNA-seq. Methods The cohort consisted of 37 consecutive patients; tumor histology included a continuum spectrum (sinonasal papillomas/dysplastic/carcinomas-in-situ/invasive squamous cell carcinomas). These were microdissected and RNA was subjected to whole-transcriptome shotgun sequencing. Results RNA-seq and pathway analysis showed that the highest expressed genes/potential drivers were development- and differentiation-related genes. The protein expression of six highly upregulated genes (HOXA9, EN1, DUX4, CA9, CD1a, and CK5/6) validated the RNA-seq results. HOXA9 and CA9 were found to be expressed in most of the carcinoma samples but were largely negative in papillomas; all of the CA9-negative carcinomas were recurrent. Conclusions We conclude that sinonasal carcinomas arising from papillomas are mainly defined by overexpressed developmental/homeobox genes, which provide the potential for transformation/plasticity, along with differentiation and proliferation behavior of neoplastic cells. Our results support HOXA9 and CA9 as biomarkers for carcinomas, with CA9 emerging as a predictive marker of recurrence.
- Published
- 2019