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Genomewide gene expression profiles of HPV-positive and HPV-negative oropharyngeal cancer: potential implications for treatment choices.

Lohavanichbutr, Pawadee and Houck, John and Fan, Wenhong and Yueh, Bevan and Mendez, Eduardo and Futran, Neal and Doody, David R and Upton, Melissa P and Farwell, D Gregory and Schwartz, Stephen M and Zhao, Lue Ping and Chen, Chu (2009) Genomewide gene expression profiles of HPV-positive and HPV-negative oropharyngeal cancer: potential implications for treatment choices. Archives of otolaryngology--head & neck surgery, 135 (2). pp. 180-188. ISSN 1538-361X

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Article URL: http://archotol.ama-assn.org/cgi/content/abstract/...

Abstract

OBJECTIVE: To study the difference in gene expression between human papillomavirus (HPV)-positive and HPV-negative oral cavity and oropharyngeal squamous cell carcinoma (OSCC). DESIGN: We used Affymetrix U133 plus 2.0 arrays to examine gene expression profiles of OSCC and normal oral tissue. The HPV DNA was detected using polymerase chain reaction followed by the Roche LINEAR ARRAY HPV Genotyping Test, and the differentially expressed genes were analyzed to examine their potential biological roles using the Ingenuity Pathway Analysis Software, version 5.0. SETTING: Three medical centers affiliated with the University of Washington. PATIENTS: A total of 119 patients with primary OSCC and 35 patients without cancer, all of whom were treated at the setting institutions, provided tissues samples for the study. RESULTS: Human papillomavirus DNA was found in 41 of 119 tumors (34.5%) and 2 of 35 normal tissue samples (5.7%); 39 of the 43 HPV specimens were HPV-16. A higher prevalence of HPV DNA was found in oropharyngeal cancer (23 of 31) than in oral cavity cancer (18 of 88). We found no significant difference in gene expression between HPV-positive and HPV-negative oral cavity cancer but found 446 probe sets (347 known genes) differentially expressed in HPV-positive oropharyngeal cancer than in HPV-negative oropharyngeal cancer. The most prominent functions of these genes are DNA replication, DNA repair, and cell cycling. Some genes differentially expressed between HPV-positive and HPV-negative oropharyngeal cancer (eg, TYMS, STMN1, CCND1, and RBBP4) are involved in chemotherapy or radiation sensitivity. CONCLUSION: These results suggest that differences in the biology of HPV-positive and HPV-negative oropharyngeal cancer may have implications for the management of patients with these different tumors.

Item Type: Article
Additional Information: This article is available to subscribers only for the first 12 months following publication via the URL above.
DOI: 10.1001/archoto.2008.540
PubMed ID: 19221247
NIHMSID: NIHMS147277
PMCID: PMC2761829
Grant Numbers: R01 CA095419-05
Keywords or MeSH Headings: Aged; Carcinoma, Squamous Cell/genetics/therapy/virology; DNA, Viral/analysis; Female; Gene Expression Regulation, Neoplastic; Genotype; Humans; Male; Middle Aged; Mouth Neoplasms/virology; Oligonucleotide Array Sequence Analysis; Oropharyngeal Neoplasms/genetics/therapy/virology; Papillomaviridae/isolation & purification;
Subjects: Diseases > Solid tumors
Organisms > Viruses > DNA viruses
Therapeutics
Cellular and Organismal Processes > Genetic processes > Transcription
Depositing User: Library Staff
Date Deposited: 24 Sep 2009 17:13
Last Modified: 14 Feb 2012 14:42
URI: http://authors.fhcrc.org/id/eprint/337

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