Gene expression profiles in HPV-infected head and neck cancer

N. F. Schlecht, Robert D. Burk, L. Adrien, A. Dunne, N. Kawachi, C. Sarta, Q. Chen, M. Brandwein-Gensler, Michael B. Prystowsky, Geoffrey J. Childs, Richard V. Smith, T. J. Belbin

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Abstract

Epidemiological and laboratory evidence indicate that, in addition to tobacco and alcohol, human papillomaviruses (HPV) play an important aetiological role in a subset of head and neck squamous cell carcinoma (HNSCC). To evaluate the molecular pathogenesis of HPV-infected HNSCC, we compared gene expression patterns between HPV-positive and -negative HNSCC tumours using cDNA microarrays. Tumour tissue was collected from 42 histologically confirmed HNSCC patients from an inner-city area of New York. Total DNA and RNA were extracted and purified from frozen tumour samples and gene expression levels were compared to a universal human reference RNA standard using a 27 323 cDNA microarray chip. HPV detection and genotyping were performed using an MY09711-PCR system and RT-PCR. HPV was detected in 29% of HNSCC tumours. Most harboured only HPV16 and expressed the HPV16-E6 oncogene. HPV prevalence was highest in pharyngeal tumours (45%). Gene expression patterns that differentiated HPV-positive from negative tumours were compared by supervised classification analysis, and a multiple-gene signature was found to predict HPV16 prevalence in primary HNSCC with a false discovery rate <0.2. Focusing on never-smokers, we further identified a distinct subset of 123 genes that were specifically dysregulated in HPV16-positive HNSCC. Overexpressed genes in HPV-positive HNSCC tumours included the retinoblastoma-binding protein (p18), replication factor-C gene, and an E2F-dimerization partner transcription factor (TFDP2) that have also been found to be overexpressed in cervical cancer. An additional subset of genes involved in viral defence and immune response, including interleukins and interferon-induced proteins, was found to be down-regulated in HPV-positive tumours, supporting a characteristic and unique transcriptional profile in HPV-induced HNSCC.

Original languageEnglish (US)
Pages (from-to)283-293
Number of pages11
JournalJournal of Pathology
Volume213
Issue number3
DOIs
StatePublished - Nov 2007

Fingerprint

Head and Neck Neoplasms
Transcriptome
Neoplasms
Genes
Oligonucleotide Array Sequence Analysis
Gene Expression
Retinoblastoma Binding Proteins
Replication Protein C
RNA
Carcinoma, squamous cell of head and neck
Polymerase Chain Reaction
Interleukins
Dimerization
Oncogenes
Uterine Cervical Neoplasms
Interferons
Tobacco
Transcription Factors
Alcohols

Keywords

  • Gene expression
  • Head and neck neoplasms
  • Human papillomavirus
  • Microarray
  • Oral
  • Pharyngeal
  • Smoking

ASJC Scopus subject areas

  • Pathology and Forensic Medicine

Cite this

Schlecht, N. F., Burk, R. D., Adrien, L., Dunne, A., Kawachi, N., Sarta, C., ... Belbin, T. J. (2007). Gene expression profiles in HPV-infected head and neck cancer. Journal of Pathology, 213(3), 283-293. https://doi.org/10.1002/path.2227

Gene expression profiles in HPV-infected head and neck cancer. / Schlecht, N. F.; Burk, Robert D.; Adrien, L.; Dunne, A.; Kawachi, N.; Sarta, C.; Chen, Q.; Brandwein-Gensler, M.; Prystowsky, Michael B.; Childs, Geoffrey J.; Smith, Richard V.; Belbin, T. J.

In: Journal of Pathology, Vol. 213, No. 3, 11.2007, p. 283-293.

Research output: Contribution to journalArticle

Schlecht, NF, Burk, RD, Adrien, L, Dunne, A, Kawachi, N, Sarta, C, Chen, Q, Brandwein-Gensler, M, Prystowsky, MB, Childs, GJ, Smith, RV & Belbin, TJ 2007, 'Gene expression profiles in HPV-infected head and neck cancer', Journal of Pathology, vol. 213, no. 3, pp. 283-293. https://doi.org/10.1002/path.2227
Schlecht NF, Burk RD, Adrien L, Dunne A, Kawachi N, Sarta C et al. Gene expression profiles in HPV-infected head and neck cancer. Journal of Pathology. 2007 Nov;213(3):283-293. https://doi.org/10.1002/path.2227
Schlecht, N. F. ; Burk, Robert D. ; Adrien, L. ; Dunne, A. ; Kawachi, N. ; Sarta, C. ; Chen, Q. ; Brandwein-Gensler, M. ; Prystowsky, Michael B. ; Childs, Geoffrey J. ; Smith, Richard V. ; Belbin, T. J. / Gene expression profiles in HPV-infected head and neck cancer. In: Journal of Pathology. 2007 ; Vol. 213, No. 3. pp. 283-293.
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