Analysis of the TCGA Dataset Reveals that Subsites of Laryngeal Squamous Cell Carcinoma Are Molecularly Distinct

Alana Sorgini; Hugh Andrew Jinwook Kim; Peter Y. F. Zeng; Mushfiq Hassan Shaikh; Neil Mundi; Farhad Ghasemi; Eric Di Gravio; Halema Khan; Danielle MacNeil; Mohammed Imran Khan; Adrian Mendez; John Yoo; Kevin Fung; Pencilla Lang; David A. Palma; Joe S. Mymryk; John W. Barrett; Krupal B. Patel; Paul C. Boutros; Anthony C. Nichols

doi:10.3390/cancers13010105

Cancers (Dec 2020)

Analysis of the TCGA Dataset Reveals that Subsites of Laryngeal Squamous Cell Carcinoma Are Molecularly Distinct

Alana Sorgini,
Hugh Andrew Jinwook Kim,
Peter Y. F. Zeng,
Mushfiq Hassan Shaikh,
Neil Mundi,
Farhad Ghasemi,
Eric Di Gravio,
Halema Khan,
Danielle MacNeil,
Mohammed Imran Khan,
Adrian Mendez,
John Yoo,
Kevin Fung,
Pencilla Lang,
David A. Palma,
Joe S. Mymryk,
John W. Barrett,
Krupal B. Patel,
Paul C. Boutros,
Anthony C. Nichols

Affiliations

Alana Sorgini: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Hugh Andrew Jinwook Kim: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Peter Y. F. Zeng: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Mushfiq Hassan Shaikh: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Neil Mundi: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Farhad Ghasemi: Department of General Surgery, University of Western Ontario, London, ON N6A 5C5, Canada
Eric Di Gravio: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Halema Khan: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Danielle MacNeil: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Mohammed Imran Khan: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Adrian Mendez: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
John Yoo: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Kevin Fung: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Pencilla Lang: Department of Oncology, University of Western Ontario, London, ON N6A 5W9, Canada
David A. Palma: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Joe S. Mymryk: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
John W. Barrett: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada
Krupal B. Patel: Department of Otolaryngology, Moffitt Cancer Center, Tampa, FL 33612, USA
Paul C. Boutros: Department of Human Genetics, University of California, Los Angeles, CA 90095, USA
Anthony C. Nichols: Department of Otolaryngology, Head and Neck Surgery, University of Western Ontario, London, ON N6A 5W9, Canada

DOI: https://doi.org/10.3390/cancers13010105
Journal volume & issue: Vol. 13, no. 1
p. 105

Abstract

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Laryngeal squamous cell carcinoma (LSCC) from different subsites have distinct presentations and prognosis. In this study, we carried out a multiomic comparison of LSCC subsites. The Cancer Genome Atlas (TCGA) LSCC cohort was analyzed in the R statistical environment for differences between supraglottic and glottic cancers in single nucleotide variations (SNVs), copy number alterations (CNAs), mRNA abundance, protein abundance, pathway overrepresentation, tumor microenvironment (TME), hypoxia status, and patient outcome. Supraglottic cancers had significantly higher overall and smoking-associated SNV mutational load. Pathway analysis revealed upregulation of muscle related pathways in glottic cancer and neural pathways in supraglottic cancer. Proteins involved in cancer relevant signaling pathways including PI3K/Akt/mTOR, the cell cycle, and PDL1 were differentially abundant between subsites. Glottic and supraglottic tumors have different molecular profiles, which may partially account for differences in presentation and response to therapy.

Published in Cancers

ISSN: 2072-6694 (Online)
Publisher: MDPI AG
Country of publisher: Switzerland
LCC subjects: Medicine: Internal medicine: Neoplasms. Tumors. Oncology. Including cancer and carcinogens
Website: https://www.mdpi.com/journal/cancers/

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